Citrus Sinensis ID: 026425

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------24
Protein Sequence
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTERTIKTW
Secondary Structure (PSIPRED)
cccccccccccEEEEEEcccEEEEEccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccEEEEEccccccccccHHHHHHHHHHHHEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcEEEEEEEcccHHEEEEcccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccEEEEHHHEHHHHHHEEEEcccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHEEEcc
Coil and Loop (DISEMBL)
MAMQAGMSFQKILMLAGLGytgtilvkdgklPELLRELQSLVERLSksgeqdnfTDAIKDQLNRLKFECqrassgqifvrnensggnatslmIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLdgkidsladkqdiTNIGMYLLCnfvdgkkgrttertiktw
Flexible Loop (DISEMBL)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVErlsksgeqdnfTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRiqnlndkvekqneisKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLlcnfvdgkkgrttertiktw
Low Complexity Region (SEG)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTERTIKTW
Disordered region (IsUnstruct)
********FQKILMLAGLGYTGTILVKDGKLPELLRELQSLV***************IKDQLNRLKFECQRASSGQIFVRNE**GGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRI******************KNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDG*************
Disordered Region (DISOPRED)
*******SFQKILMLAGLGYTGTILVKDGKLPELLRE***********************QLNRLK*******************GNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATA*SNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEI**DI***VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRT********
Disordered Region (DISEMBL)
********FQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKK***********
Disordered Region (DISPRO)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTERTI***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFECQRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTERTIKTW
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	238
224102025	316	predicted protein [Populus trichocarpa]	0.962	0.724	0.601	9e-71
224108101	316	predicted protein [Populus trichocarpa]	0.962	0.724	0.593	2e-70
449451443	293	PREDICTED: uncharacterized protein LOC10	0.953	0.774	0.551	3e-64
359473271	307	PREDICTED: uncharacterized protein LOC10	0.991	0.768	0.551	2e-63
18396143	304	uncharacterized protein [Arabidopsis tha	0.974	0.763	0.544	3e-63
21537323	304	unknown [Arabidopsis thaliana]	0.974	0.763	0.544	3e-63
8778852	334	T7N9.6 [Arabidopsis thaliana]	0.974	0.694	0.530	5e-61
297850966	304	hypothetical protein ARALYDRAFT_890018 [	0.974	0.763	0.527	5e-61
15227027	276	uncharacterized protein [Arabidopsis tha	0.974	0.840	0.478	2e-55
449496535	212	PREDICTED: uncharacterized LOC101210112	0.831	0.933	0.556	2e-55

>gi|224102025|ref|XP_002312515.1| predicted protein [Populus trichocarpa] gi|222852335|gb|EEE89882.1| predicted protein [Populus trichocarpa]

 Score =  272 bits (695), Expect = 9e-71,   Method: Compositional matrix adjust.
 Identities = 142/236 (60%), Positives = 176/236 (74%), Gaps = 7/236 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAMQAG+S  +IL+LAG GYTGTI++K+GKL ELL ELQSL + + KSGEQ +    ++D
Sbjct: 1   MAMQAGVSVSRILILAGAGYTGTIMLKNGKLSELLGELQSLTKGMGKSGEQSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q AS+ QI V N NSG  GN T L+ PAATLGALGYGYMWWKGL F
Sbjct: 61  AIAQQVRRLAMEVRQLASARQITVLNGNSGQMGNLTGLIAPAATLGALGYGYMWWKGLKF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +D MYVT++SMA+AVSNL KHLE V+EAL+ AK HLTQRIQ L+DK+E Q EISK I+ +
Sbjct: 121 SDFMYVTKRSMASAVSNLTKHLEQVSEALSTAKTHLTQRIQLLDDKMESQKEISKAIQND 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGR 229
           V  A ++L ++   L  LQ ++  LDGKI SL +KQDI N+G+  LCNFV GKK +
Sbjct: 181 VNAASENLTQIGSELWQLQCLVSGLDGKIGSLEEKQDIANMGVMYLCNFVGGKKAK 236

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108101|ref|XP_002314721.1| predicted protein [Populus trichocarpa] gi|222863761|gb|EEF00892.1| predicted protein [Populus trichocarpa]

 Score =  271 bits (692), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 140/236 (59%), Positives = 177/236 (75%), Gaps = 7/236 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAMQAG+   +IL+LAG GYTGTI++K+GKL EL+ ELQSLV+ + KSGE+ +    ++D
Sbjct: 1   MAMQAGIGVSRILILAGAGYTGTIMLKNGKLSELIAELQSLVKGMEKSGEKSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q AS+ QI V + N G  GN T L+IPAATLGALGYGYMWWKGL F
Sbjct: 61  AIAQQVRRLAMEVRQLASARQITVLSGNPGQMGNLTGLIIPAATLGALGYGYMWWKGLKF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT++SMA+AVSNL KHLE V+EAL+ AK HLTQRIQ+L+DK+E Q EISK I+ +
Sbjct: 121 SDLMYVTKRSMASAVSNLTKHLEQVSEALSTAKTHLTQRIQHLDDKMESQKEISKAIQND 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGR 229
           V  A ++L  +   L  LQ ++  LDGKI SL +KQDI N+G+  LCNFV GKK +
Sbjct: 181 VNAASENLTLIGSELWQLQCLVSGLDGKIGSLEEKQDIANMGVMYLCNFVGGKKAK 236

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451443|ref|XP_004143471.1| PREDICTED: uncharacterized protein LOC101210112 [Cucumis sativus]

 Score =  250 bits (639), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 129/234 (55%), Positives = 171/234 (73%), Gaps = 7/234 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAM  G+   KIL+L G GY+ TI++K+GKL ++L ELQSLV+ + KSGEQ +    ++D
Sbjct: 1   MAMHTGVGLSKILILVGAGYSTTIMLKNGKLSDVLGELQSLVKGMEKSGEQSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q +SS QI + N NSG  GN +SL++PAATLGALGYGYMWWKGLSF
Sbjct: 61  AIAAQVRRLAMEVRQLSSSRQITILNGNSGNIGNLSSLIVPAATLGALGYGYMWWKGLSF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT+++MA AVSNL KHLE V+EAL   K+HLTQRI+NL+DK+ KQNE+SK I+++
Sbjct: 121 SDLMYVTKRNMANAVSNLTKHLEHVSEALAATKRHLTQRIENLDDKMVKQNELSKLIKED 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKK 227
           V      L  ++ +L +L +M+  LDGK+  L  KQD   +G+  LCN VDGK+
Sbjct: 181 VAGVQKSLSDIDFDLGELHNMVSGLDGKLSQLEFKQDFATLGVMYLCNVVDGKQ 234

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473271|ref|XP_002277155.2| PREDICTED: uncharacterized protein LOC100246806 [Vitis vinifera] gi|296086423|emb|CBI32012.3| unnamed protein product [Vitis vinifera]

 Score =  248 bits (633), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 134/243 (55%), Positives = 171/243 (70%), Gaps = 7/243 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAMQ G+   KIL+L G GYT TIL+K+GKL ++L ELQSLV+ L K G+  N    ++D
Sbjct: 1   MAMQTGVGVSKILILVGAGYTSTILLKNGKLSDILGELQSLVKGLEKKGDSSNGEADYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q AS+ QI V N NSG  GN TSL IPAATLGALGYGYMWWKGLS 
Sbjct: 61  AIAAQVRRLAMEVKQLASARQITVLNGNSGQIGNITSLAIPAATLGALGYGYMWWKGLSI 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT+K+M TAV+NL KHLE V++AL+  K+HLTQRI+NL+ K+++Q EISK I+  
Sbjct: 121 SDLMYVTKKNMETAVTNLKKHLEHVSDALSATKRHLTQRIENLDGKLDEQKEISKLIKNE 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTER 233
           V EA  D+ ++  +L  LQ M+  LDGKI SL  KQ+    G+  LCN V+G+    +E 
Sbjct: 181 VTEARGDISQIGFDLDSLQRMVSGLDGKIGSLEYKQNFAVEGVVYLCNAVNGRSVPMSET 240

Query: 234 TIK 236
            +K
Sbjct: 241 MLK 243

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18396143|ref|NP_564269.1| uncharacterized protein [Arabidopsis thaliana] gi|13430462|gb|AAK25853.1|AF360143_1 unknown protein [Arabidopsis thaliana] gi|15810657|gb|AAL07253.1| unknown protein [Arabidopsis thaliana] gi|15982836|gb|AAL09765.1| At1g27000/T7N9_6 [Arabidopsis thaliana] gi|332192646|gb|AEE30767.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 129/237 (54%), Positives = 167/237 (70%), Gaps = 5/237 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct: 1   MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
           AI  Q+ RL  E  Q AS   I V N  SG N  +L +PAA LGALGYGYMWWKGLSF D
Sbjct: 61  AIAAQVRRLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTD 120

Query: 116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
           LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+I   V 
Sbjct: 121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVI 180

Query: 176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTE 232
            A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E
Sbjct: 181 SARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTKLPE 237

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21537323|gb|AAM61664.1| unknown [Arabidopsis thaliana]

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 129/237 (54%), Positives = 167/237 (70%), Gaps = 5/237 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct: 1   MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
           AI  Q+ RL  E  Q AS   I V N  SG N  +L +PAA LGALGYGYMWWKGLSF D
Sbjct: 61  AIAAQVRRLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTD 120

Query: 116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
           LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+I   V 
Sbjct: 121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVI 180

Query: 176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTE 232
            A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E
Sbjct: 181 SARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTKLPE 237

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|8778852|gb|AAF79851.1|AC000348_4 T7N9.6 [Arabidopsis thaliana]

 Score =  239 bits (611), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 129/243 (53%), Positives = 167/243 (68%), Gaps = 11/243 (4%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct: 1   MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG------GNATSLMIPAATLGALGYGYMWWK 109
           AI  Q+ RL  E  Q AS   I V N  SG       N  +L +PAA LGALGYGYMWWK
Sbjct: 61  AIAAQVRRLAMEIRQLASQQHITVMNGVSGDSLVFSANLQALAVPAAALGALGYGYMWWK 120

Query: 110 GLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKD 169
           GLSF DLMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+
Sbjct: 121 GLSFTDLMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKE 180

Query: 170 IRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGR 229
           I   V  A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +
Sbjct: 181 INSQVISARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTK 240

Query: 230 TTE 232
             E
Sbjct: 241 LPE 243

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297850966|ref|XP_002893364.1| hypothetical protein ARALYDRAFT_890018 [Arabidopsis lyrata subsp. lyrata] gi|297339206|gb|EFH69623.1| hypothetical protein ARALYDRAFT_890018 [Arabidopsis lyrata subsp. lyrata]

 Score =  239 bits (611), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 125/237 (52%), Positives = 164/237 (69%), Gaps = 5/237 (2%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
           MAM AG+   +I +LAG GYTGTI++K+GKL +LL ELQ LV+ + KSGE      + +D
Sbjct: 1   MAMHAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQGLVKGMEKSGEGSEGDSDVSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
           AI  Q+ RL  E  Q AS   I V N  SG N  +L +PAA LGALGY YMWWKGLSF D
Sbjct: 61  AIAAQVRRLAMEVRQLASQQHITVMNGVSGANLQALAVPAAALGALGYSYMWWKGLSFTD 120

Query: 116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
           LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQN++DKVEKQ ++SK+I   V 
Sbjct: 121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNVDDKVEKQIDLSKEINSQVI 180

Query: 176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTE 232
            A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E
Sbjct: 181 AARENINSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLHLYNYFGGKSTKLPE 237

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15227027|ref|NP_178376.1| uncharacterized protein [Arabidopsis thaliana] gi|42570657|ref|NP_973402.1| uncharacterized protein [Arabidopsis thaliana] gi|20196955|gb|AAC05349.2| expressed protein [Arabidopsis thaliana] gi|21618010|gb|AAM67060.1| unknown [Arabidopsis thaliana] gi|26453164|dbj|BAC43658.1| unknown protein [Arabidopsis thaliana] gi|28950835|gb|AAO63341.1| At2g02730 [Arabidopsis thaliana] gi|330250522|gb|AEC05616.1| uncharacterized protein [Arabidopsis thaliana] gi|330250523|gb|AEC05617.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  221 bits (564), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 112/234 (47%), Positives = 166/234 (70%), Gaps = 2/234 (0%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQ-DNFTDAIK 59
           MAMQ+G+   KIL+LAG GYT TILVK+GK+ ++L ELQ+LV+R  KSG+  D+ +DA+ 
Sbjct: 1   MAMQSGIGLSKILILAGAGYTSTILVKNGKMADILGELQALVKRFEKSGDHVDDDSDAMT 60

Query: 60  DQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMY 118
            Q+ RL  E  Q ASS QI V N   G + T  ++PAATLGALGYGYMW+KG+SF+D+M 
Sbjct: 61  TQMQRLAMEVRQLASSRQITVMNGAQGADFTPFIVPAATLGALGYGYMWFKGISFSDIMC 120

Query: 119 VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC 178
           VT+++M  AVSNL KHL++V+EA+  AKKHL+QR+Q ++DK++ Q ++ K ++ NV  A 
Sbjct: 121 VTKRNMENAVSNLTKHLDTVSEAILNAKKHLSQRLQKVDDKLDLQKDLLKGVQDNVGLAL 180

Query: 179 DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTE 232
           +DL  +  +   + S+   + GK+DS+  KQ+I N+G+  LC+ + G+  +  +
Sbjct: 181 EDLANIGDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGGENHKMPD 234

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449496535|ref|XP_004160159.1| PREDICTED: uncharacterized LOC101210112 [Cucumis sativus]

 Score =  221 bits (563), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 114/205 (55%), Positives = 152/205 (74%), Gaps = 7/205 (3%)

Query: 1   MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQDN----FTD 56
           MAM  G+   KIL+L G GY+ TI++K+GKL ++L ELQSLV+ + KSGEQ +    ++D
Sbjct: 1   MAMHTGVGLSKILILVGAGYSTTIMLKNGKLSDVLGELQSLVKGMEKSGEQSDGDSDYSD 60

Query: 57  AIKDQLNRLKFEC-QRASSGQIFVRNENSG--GNATSLMIPAATLGALGYGYMWWKGLSF 113
           AI  Q+ RL  E  Q +SS QI + N NSG  GN +SL++PAATLGALGYGYMWWKGLSF
Sbjct: 61  AIAAQVRRLAMEVRQLSSSRQITILNGNSGNIGNLSSLIVPAATLGALGYGYMWWKGLSF 120

Query: 114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKN 173
           +DLMYVT+++MA AVSNL KHLE V+EAL   K+HLTQRI+NL+DK+ KQNE+SK I+++
Sbjct: 121 SDLMYVTKRNMANAVSNLTKHLEHVSEALAATKRHLTQRIENLDDKMVKQNELSKLIKED 180

Query: 174 VEEACDDLFKVEHNLKDLQSMIYCL 198
           V      L  ++ +L +L +M+  L
Sbjct: 181 VAGVQKSLSDIDFDLGELHNMVSGL 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	238
TAIR|locus:2205734	304	AT1G27000 "AT1G27000" [Arabido	0.974	0.763	0.540	6.4e-60
TAIR|locus:2058832	276	AT2G02730 "AT2G02730" [Arabido	0.949	0.818	0.491	5.5e-54
TAIR|locus:2010602	334	AT1G04960 "AT1G04960" [Arabido	0.903	0.643	0.383	1.1e-34
TAIR|locus:1005716745	344	AT1G24267 "AT1G24267" [Arabido	0.840	0.581	0.281	2.8e-18
TAIR|locus:2823619	51	AT1G44674 "AT1G44674" [Arabido	0.214	1.0	0.470	3.9e-08

TAIR|locus:2205734 AT1G27000 "AT1G27000" [Arabidopsis thaliana (taxid:3702)]

 Score = 614 (221.2 bits), Expect = 6.4e-60, P = 6.4e-60
 Identities = 128/237 (54%), Positives = 169/237 (71%)

Query:     1 MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGE----QDNFTD 56
             MAMQAG+   +I +LAG GYTGTI++K+GKL +LL ELQSLV+ + KSGE      + +D
Sbjct:     1 MAMQAGVGLSRIFLLAGAGYTGTIMMKNGKLSDLLGELQSLVKGMEKSGEGSEGDSDVSD 60

Query:    57 AIKDQLNRLKFECQRASSGQ-IFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFAD 115
             AI  Q+ RL  E ++ +S Q I V N  SG N  +L +PAA LGALGYGYMWWKGLSF D
Sbjct:    61 AIAAQVRRLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTD 120

Query:   116 LMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE 175
             LMYVT+ +MA AV+NL K+LE V+E L  AK+HLTQRIQNL+DKVEKQ ++SK+I   V 
Sbjct:   121 LMYVTKANMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVI 180

Query:   176 EACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTE 232
              A +++  +E +L+ L ++I  LDGK+D+L  KQD+TN+ M  L N+  GK  +  E
Sbjct:   181 SARENISSLEMDLESLHNLITGLDGKLDTLEYKQDVTNVFMLNLYNYFGGKSTKLPE 237

GO:0003677 "DNA binding" evidence=ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS

TAIR|locus:2058832 AT2G02730 "AT2G02730" [Arabidopsis thaliana (taxid:3702)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 112/228 (49%), Positives = 164/228 (71%)

Query:     1 MAMQAGMSFQKILMLAGLGYTGTILVKDGKLPELLRELQSLVERLSKSGEQ-DNFTDAIK 59
             MAMQ+G+   KIL+LAG GYT TILVK+GK+ ++L ELQ+LV+R  KSG+  D+ +DA+ 
Sbjct:     1 MAMQSGIGLSKILILAGAGYTSTILVKNGKMADILGELQALVKRFEKSGDHVDDDSDAMT 60

Query:    60 DQLNRLKFEC-QRASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMY 118
              Q+ RL  E  Q ASS QI V N   G + T  ++PAATLGALGYGYMW+KG+SF+D+M 
Sbjct:    61 TQMQRLAMEVRQLASSRQITVMNGAQGADFTPFIVPAATLGALGYGYMWFKGISFSDIMC 120

Query:   119 VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC 178
             VT+++M  AVSNL KHL++V+EA+  AKKHL+QR+Q ++DK++ Q ++ K ++ NV  A 
Sbjct:   121 VTKRNMENAVSNLTKHLDTVSEAILNAKKHLSQRLQKVDDKLDLQKDLLKGVQDNVGLAL 180

Query:   179 DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGK 226
             +DL  +  +   + S+   + GK+DS+  KQ+I N+G+  LC+ + G+
Sbjct:   181 EDLANIGDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGGE 228

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2010602 AT1G04960 "AT1G04960" [Arabidopsis thaliana (taxid:3702)]

 Score = 376 (137.4 bits), Expect = 1.1e-34, P = 1.1e-34
 Identities = 86/224 (38%), Positives = 137/224 (61%)

Query:    19 GYTGTILVKDGKLPELLRELQSLVERL----SKSGEQDNFTDA--IKDQLNRLKFECQRA 72
             G +G+I+++ G+L +L+ +LQ L+       S   + D    A  I+   N +K E    
Sbjct:    36 GVSGSIVLRHGRLSDLIAQLQDLLNGAQGVESTPFKYDGALLAAQIRQLANEIK-ELTMT 94

Query:    73 SSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLN 132
             +   IF  + NS G A S ++PAA +GA+GY YMWWKG SF+D M+VT+K+MA AV++++
Sbjct:    95 NPVTIFNGDSNSSGYA-SYLVPAAAVGAMGYCYMWWKGWSFSDAMFVTKKNMADAVASVS 153

Query:   133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQ 192
             K L+ +++ L   +KHL+Q++  L+ KVE+QNE SK I  +V E    + ++  + K L 
Sbjct:   154 KQLDDLSDTLASTRKHLSQKLATLDWKVEEQNETSKMILSDVTEMRSSISQIGFDFKQLN 213

Query:   193 SMIYCLDGKIDSLADKQDITNIGMYLLCNFVDGKKGRTTERTIK 236
              MI  ++GKI+SL  KQD+T  G++ LC  V G K  T+ +  +
Sbjct:   214 EMISGIEGKIESLESKQDVTLSGLWHLCQ-VAGVKDSTSTKVFQ 256

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1005716745 AT1G24267 "AT1G24267" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 62/220 (28%), Positives = 107/220 (48%)

Query:    11 KILMLAGLGYTGTILVKDGKLPEL-----------LRELQSLVERLSKSGEQDNFTDAIK 59
             K+ +L G G  G++L K+G LP++            R+L+   E  +KS  +    D + 
Sbjct:     7 KLTILIGAGLVGSVLAKEGSLPDVSSFVSGALKMVFRQLKQ--EEPAKSASKPR-NDTLM 63

Query:    60 DQLNRLKFECQRASSGQ--IFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLM 117
              Q+N L+ E    SS +    V    SGG     +I    +G +GYGY+WWKG    DLM
Sbjct:    64 AQVNSLRHELSLLSSNRPITIVTTAGSGGKKYGYII---IIGVIGYGYVWWKGWKLPDLM 120

Query:   118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA 177
             + TR+S++ A +++   ++    +L+  KK L+ +I  +   ++   EI +D  + V E 
Sbjct:   121 FATRRSLSDACNSVGSQIDGFYTSLSGTKKELSSKIDGMGRSLDANTEIIQDTGREVMEL 180

Query:   178 CDDLFKVEHNLKDLQSMIYCLDGK-IDSLADKQDITNIGM 216
                   ++ ++K +   +  L  K I  +   QDIT  G+
Sbjct:   181 QRGTENIKDDVKFVFDAVENLVRKLIYRIEGNQDITLKGV 220

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0031307 "integral to mitochondrial outer membrane" evidence=IDA

TAIR|locus:2823619 AT1G44674 "AT1G44674" [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 3.9e-08, P = 3.9e-08
 Identities = 24/51 (47%), Positives = 39/51 (76%)

Query:   124 MATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV 174
             MAT V+NL K+LE V++ L  A +HL Q+IQ+++DKV+KQ +++++I   V
Sbjct:     1 MATVVANLTKNLEQVSKILAAANRHLMQKIQSVDDKVKKQIDLNEEINSQV 51


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.317   0.132   0.376    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      238       238   0.00091  113 3  11 22  0.43    33
                                                     32  0.44    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  5
  No. of states in DFA:  591 (63 KB)
  Total size of DFA:  166 KB (2099 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  27.67u 0.13s 27.80t   Elapsed:  00:00:01
  Total cpu time:  27.67u 0.13s 27.80t   Elapsed:  00:00:02
  Start:  Fri May 10 13:01:05 2013   End:  Fri May 10 13:01:07 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	238
pfam07889	125	pfam07889, DUF1664, Protein of unknown function (D	6e-49

>gnl|CDD|203795 pfam07889, DUF1664, Protein of unknown function (DUF1664)

 Score =  156 bits (396), Expect = 6e-49
 Identities = 62/125 (49%), Positives = 91/125 (72%)

Query: 85  GGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTV 144
           G     L++PAA LGALGYGYMWWKG SF+DLM+VT+++M+ AV+++ K LE V+E++  
Sbjct: 1   GSGRKYLIVPAAALGALGYGYMWWKGWSFSDLMFVTKRNMSDAVASVGKQLEKVSESIAA 60

Query: 145 AKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS 204
           AKKHL+QRI NL+DK+++Q EIS+  R  V E  +DL  +  ++K +   +  L+GK+DS
Sbjct: 61  AKKHLSQRIDNLDDKLDEQKEISESTRDEVTEIREDLSNIGEDVKSVHQAVEGLEGKLDS 120

Query: 205 LADKQ 209
           +  KQ
Sbjct: 121 IEYKQ 125

The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long. Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	238
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	100.0
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	96.9
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	95.86
PRK10884	206	SH3 domain-containing protein; Provisional	95.81
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	95.65
PRK03947	140	prefoldin subunit alpha; Reviewed	95.39
PRK11637	428	AmiB activator; Provisional	95.38
PF01519	102	DUF16: Protein of unknown function DUF16; InterPro	95.35
cd00584	129	Prefoldin_alpha Prefoldin alpha subunit; Prefoldin	94.54
PHA02562	562	46 endonuclease subunit; Provisional	94.23
PRK14011	144	prefoldin subunit alpha; Provisional	94.06
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	94.02
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.76
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	93.53
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	93.42
PF02996	120	Prefoldin: Prefoldin subunit; InterPro: IPR004127	93.4
KOG2629	300	consensus Peroxisomal membrane anchor protein (per	93.38
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	93.23
PRK11637	428	AmiB activator; Provisional	93.22
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	93.21
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	93.21
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	93.19
PF10158	131	LOH1CR12: Tumour suppressor protein; InterPro: IPR	92.61
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	92.03
COG4942	420	Membrane-bound metallopeptidase [Cell division and	91.63
PRK10920	390	putative uroporphyrinogen III C-methyltransferase;	91.51
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	91.04
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	90.92
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	90.72
PF04513	140	Baculo_PEP_C: Baculovirus polyhedron envelope prot	89.7
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	89.69
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	89.49
PHA02562	562	46 endonuclease subunit; Provisional	89.08
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	88.57
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	88.02
PF05597	132	Phasin: Poly(hydroxyalcanoate) granule associated	87.74
PRK10884	206	SH3 domain-containing protein; Provisional	87.7
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	87.59
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	87.44
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	87.38
PRK04406	75	hypothetical protein; Provisional	87.23
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	87.21
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	87.15
PF06419	618	COG6: Conserved oligomeric complex COG6; InterPro:	87.0
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	86.69
PRK09039	343	hypothetical protein; Validated	86.66
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	86.43
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	86.31
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	86.2
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	86.19
PRK04778	569	septation ring formation regulator EzrA; Provision	85.99
PF05739	63	SNARE: SNARE domain; InterPro: IPR000727 The proce	85.85
KOG0972	384	consensus Huntingtin interacting protein 1 (Hip1)	85.75
PRK04778	569	septation ring formation regulator EzrA; Provision	85.48
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	85.46
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	85.35
PF09403	126	FadA: Adhesion protein FadA; InterPro: IPR018543 F	85.21
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	85.13
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	84.83
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	84.82
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	84.82
PRK13182	175	racA polar chromosome segregation protein; Reviewe	84.49
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	83.93
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	83.62
PF09602	165	PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion prot	82.92
TIGR01837	118	PHA_granule_1 poly(hydroxyalkanoate) granule-assoc	82.89
PF12732	74	YtxH: YtxH-like protein; InterPro: IPR024623 This	82.85
KOG1161	310	consensus Protein involved in vacuolar polyphospha	82.76
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	82.44
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	82.43
PF04380	79	BMFP: Membrane fusogenic activity; InterPro: IPR00	82.37
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	81.93
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	81.87
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	81.67
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	80.94
PF06295	128	DUF1043: Protein of unknown function (DUF1043); In	80.87
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	80.28
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	80.13
PF09177	97	Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IP	80.1
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	80.07

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=100.00  E-value=2e-62  Score=401.13  Aligned_cols=126  Identities=50%  Similarity=0.903  Sum_probs=123.6

Q ss_pred             CCCCcceeehhhhhHhhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH
Q 026425           83 NSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK  162 (238)
Q Consensus        83 ~sGg~~~~~ivpaA~vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~  162 (238)
                      +|| ++++||+|||++||+|||||||||||||||||||||||+|||++|+|||||||++|++|||||+||||+||+|||+
T Consensus         1 ~sg-~~~~~i~paa~~gavGY~Y~wwKGws~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~klDe   79 (126)
T PF07889_consen    1 GSG-GWSSLIVPAAAIGAVGYGYMWWKGWSFSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDDKLDE   79 (126)
T ss_pred             CCC-CccchhhHHHHHHHHHheeeeecCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            355 7889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 026425          163 QNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (238)
Q Consensus       163 ~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (238)
                      |.|++++|++||+++++|+++|++|+++||++|++||+||++||+||
T Consensus        80 ~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~~Q  126 (126)
T PF07889_consen   80 QKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIEEKQ  126 (126)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999999998

The region featured in this family is approximately 100 amino acids long.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=96.90  E-value=0.0028  Score=50.48  Aligned_cols=85  Identities=21%  Similarity=0.358  Sum_probs=42.7

Q ss_pred             HhhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHH
Q 026425           97 TLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEE  176 (238)
Q Consensus        97 ~vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~  176 (238)
                      ++.+++|+++||+   ++. =||+|..+..               |++.-.+...|++.|+.+++.+     =+++++..
T Consensus        14 a~~~~~~~~~~~~---l~~-~~a~~~~~~~---------------l~~~~~~~~~Rl~~lE~~l~~L-----Pt~~dv~~   69 (106)
T PF10805_consen   14 AVFGIAGGIFWLW---LRR-TYAKREDIEK---------------LEERLDEHDRRLQALETKLEHL-----PTRDDVHD   69 (106)
T ss_pred             HHHHHHHHHHHHH---HHH-hhccHHHHHH---------------HHHHHHHHHHHHHHHHHHHHhC-----CCHHHHHH
Confidence            3445666777775   222 3666554433               1111122344455555444433     11556666


Q ss_pred             hhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          177 ACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       177 v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      ++..++++.+|++.+...+++++-..+.+
T Consensus        70 L~l~l~el~G~~~~l~~~l~~v~~~~~lL   98 (106)
T PF10805_consen   70 LQLELAELRGELKELSARLQGVSHQLDLL   98 (106)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666655555555544443

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2

Probab=95.86  E-value=0.087  Score=49.96  Aligned_cols=44  Identities=14%  Similarity=0.218  Sum_probs=21.6

Q ss_pred             HHHhhhhHHHhhhhHHHHHHHHHhhhh------hhhhhhhhhHHHHHHHH
Q 026425          174 VEEACDDLFKVEHNLKDLQSMIYCLDG------KIDSLADKQDITNIGMY  217 (238)
Q Consensus       174 V~~v~~d~~~i~~dv~~v~~~V~~Le~------Ki~~ie~kQd~tn~GV~  217 (238)
                      +..++..+......+..+++-+..|++      .+.++|+=-..+|+-++
T Consensus        95 ~~~l~~~l~~~~~~l~~l~~~~~~l~~~~~~dW~LaEaeyLlrlA~qrL~  144 (372)
T PF04375_consen   95 LQQLQQELAQLQQQLAELQQQLAALSQRSRDDWLLAEAEYLLRLANQRLQ  144 (372)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCChHhHHHHHHHHHHHHHHHHHH
Confidence            333333344444555555555555554      44555555555555444

1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.81  E-value=0.35  Score=42.98  Aligned_cols=98  Identities=15%  Similarity=0.226  Sum_probs=71.1

Q ss_pred             heeeeee----eccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 026425          102 GYGYMWW----KGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (238)
Q Consensus       102 GYgYmwW----KGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (238)
                      ||.++.-    .|| +++=+-.+..++..-+..+-++|+.+.+.|+.+.....+|-..+..++++.......++++-.++
T Consensus        66 ~w~~Vr~~~G~~GW-V~~~~Ls~~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L  144 (206)
T PRK10884         66 NYAQIRDSKGRTAW-IPLKQLSTTPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKL  144 (206)
T ss_pred             CEEEEEeCCCCEEe-EEHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5777763    378 44444556678999999999999999999999999999999999999888766666655555555


Q ss_pred             hhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 026425          178 CDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (238)
Q Consensus       178 ~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (238)
                      +..+       ..++.-++.|+.+++.+..
T Consensus       145 ~~~l-------~~~~~~~~~l~~~~~~~~~  167 (206)
T PRK10884        145 KNQL-------IVAQKKVDAANLQLDDKQR  167 (206)
T ss_pred             HHHH-------HHHHHHHHHHHHHHHHHHH
Confidence            5444       4455555555666555553

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=95.65  E-value=0.23  Score=39.54  Aligned_cols=54  Identities=24%  Similarity=0.331  Sum_probs=46.0

Q ss_pred             hhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 026425           98 LGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (238)
Q Consensus        98 vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (238)
                      +.-+|.||+-.+                               ++..|+++|..|++.++..+++..+..+..+++++.+
T Consensus        71 ~v~iG~g~~vE~-------------------------------~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i  119 (126)
T TIGR00293        71 LVSIGSGYYVEK-------------------------------DAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQL  119 (126)
T ss_pred             EEEcCCCEEEEe-------------------------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            347899999888                               4689999999999999999999999888888888887


Q ss_pred             hhhHH
Q 026425          178 CDDLF  182 (238)
Q Consensus       178 ~~d~~  182 (238)
                      ...+.
T Consensus       120 ~~~l~  124 (126)
T TIGR00293       120 EQEAQ  124 (126)
T ss_pred             HHHHh
Confidence            76543

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=95.39  E-value=0.55  Score=38.22  Aligned_cols=55  Identities=25%  Similarity=0.355  Sum_probs=39.2

Q ss_pred             hhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 026425           98 LGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (238)
Q Consensus        98 vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (238)
                      +.-+|+||+-.+-                               +..|++.|..|++.++..+++..+-...+++++..+
T Consensus        79 ~v~lG~g~~vE~~-------------------------------~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~  127 (140)
T PRK03947         79 IVSLGAGYSAEKD-------------------------------LDEAIEILDKRKEELEKALEKLEEALQKLASRIAQL  127 (140)
T ss_pred             EEEcCCCEEEEec-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3469999998884                               577788888888888888777766666666666555


Q ss_pred             hhhHHH
Q 026425          178 CDDLFK  183 (238)
Q Consensus       178 ~~d~~~  183 (238)
                      +..+.+
T Consensus       128 ~~~l~~  133 (140)
T PRK03947        128 AQELQQ  133 (140)
T ss_pred             HHHHHH
Confidence            544433

>PRK11637 AmiB activator; Provisional

Probab=95.38  E-value=0.22  Score=47.57  Aligned_cols=80  Identities=3%  Similarity=0.175  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHhhHHHHHHHH---HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 026425          124 MATAVSNLNKHLESVTEALT---VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (238)
Q Consensus       124 ms~Av~sv~kqLe~Vs~sL~---~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (238)
                      ..+-...+-+++++....+.   .-++++.+.|+.++.++++..+-...++.++.++..+++....++...+.-+..+..
T Consensus        45 ~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~  124 (428)
T PRK11637         45 NRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER  124 (428)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444   333344455666666666665555555555555555555555555555555555544


Q ss_pred             hhh
Q 026425          201 KID  203 (238)
Q Consensus       201 Ki~  203 (238)
                      .+.
T Consensus       125 ~l~  127 (428)
T PRK11637        125 LLA  127 (428)
T ss_pred             HHH
Confidence            443

>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function

Probab=95.35  E-value=0.14  Score=41.47  Aligned_cols=81  Identities=21%  Similarity=0.330  Sum_probs=46.2

Q ss_pred             HHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 026425          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (238)
Q Consensus       118 yVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (238)
                      |||++-+...=.+--.-|..+-..+...  -...+|+.|..+.+.|-|-++..+.++       ...+.-++.|-.....
T Consensus        22 YVT~kef~efKd~~~q~L~kiE~~~~~l--~qgeqI~kL~e~V~~QGEqIkel~~e~-------k~qgktL~~I~~~L~~   92 (102)
T PF01519_consen   22 YVTHKEFDEFKDSNNQRLTKIENKLDQL--AQGEQINKLTEKVDKQGEQIKELQVEQ-------KAQGKTLQLILKTLQS   92 (102)
T ss_dssp             B-BHHHHHHH---HTTB-BHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhhccHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
Confidence            8999999876655555555555555433  344455555555555544444444444       4555666667777777


Q ss_pred             hhhhhhhhhh
Q 026425          198 LDGKIDSLAD  207 (238)
Q Consensus       198 Le~Ki~~ie~  207 (238)
                      +..|||+||.
T Consensus        93 inkRLD~~E~  102 (102)
T PF01519_consen   93 INKRLDKMES  102 (102)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHhhccC
Confidence            7889988874

It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.

>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=94.54  E-value=1  Score=36.06  Aligned_cols=99  Identities=19%  Similarity=0.247  Sum_probs=61.7

Q ss_pred             chHHHHHHHHHHHHHH-hhhc------------CCCeEEEeCCCCCcceeehhh-hhHhhhhheeeeeeeccccchhHHH
Q 026425           54 FTDAIKDQLNRLKFEC-QRAS------------SGQIFVRNENSGGNATSLMIP-AATLGALGYGYMWWKGLSFADLMYV  119 (238)
Q Consensus        54 ~~d~L~aQV~~L~~El-~las------------~r~iTvvn~~sGg~~~~~ivp-aA~vGavGYgYmwWKGws~sDlMyV  119 (238)
                      ..+.|.+|+++|...+ ++..            ...-+.|+-|+|--..+-|.+ ==++.-+|.||+-.+          
T Consensus        14 ~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~~~~~~~i~~~~~v~v~iG~g~~vE~----------   83 (129)
T cd00584          14 EIEELQQELARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAGVFVKAKVKDTDKVLVDLGTGYYVEK----------   83 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCeEEeEEeCCCCEEEEEcCCCEEEEe----------
Confidence            3566666666666666 4332            112344555555111111110 002357899998776          


Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 026425          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (238)
                                           ++..|++.+..||+.+...+++..+....++++++.+...+++
T Consensus        84 ---------------------~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~  126 (129)
T cd00584          84 ---------------------DLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQE  126 (129)
T ss_pred             ---------------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                 4677788999999999999888888888888888777765554

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>PHA02562 46 endonuclease subunit; Provisional

Probab=94.23  E-value=0.83  Score=44.21  Aligned_cols=90  Identities=14%  Similarity=0.270  Sum_probs=66.9

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhh
Q 026425          129 SNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADK  208 (238)
Q Consensus       129 ~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~k  208 (238)
                      +.+..++++....+...++.+...|+.+..++++...-...++.++..++..+.+++.+++.+...+..++.++..++.+
T Consensus       191 ~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~  270 (562)
T PHA02562        191 DHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSK  270 (562)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHH
Confidence            33344444444555566666677788888888888888899999999999999999999888888888888888877766


Q ss_pred             hHHHHHHHHH
Q 026425          209 QDITNIGMYL  218 (238)
Q Consensus       209 Qd~tn~GV~~  218 (238)
                      -......+.+
T Consensus       271 l~~~~~~~~~  280 (562)
T PHA02562        271 IEQFQKVIKM  280 (562)
T ss_pred             HHHHHHHHHH
Confidence            5554444333

>PRK14011 prefoldin subunit alpha; Provisional

Probab=94.06  E-value=0.75  Score=38.89  Aligned_cols=41  Identities=10%  Similarity=0.298  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhH
Q 026425          141 ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDL  181 (238)
Q Consensus       141 sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~  181 (238)
                      ++.+|+.+|..||+.|+..+++..+..+.+.+++.+++..+
T Consensus        85 ~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L  125 (144)
T PRK14011         85 DVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKEL  125 (144)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788999999999999999999999999988887777543

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=94.02  E-value=1.3  Score=33.51  Aligned_cols=72  Identities=21%  Similarity=0.332  Sum_probs=56.4

Q ss_pred             hhHHHHHHH---HHHHHHHHHHHHhhHHhHHHHHHHHHHH--HHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 026425          134 HLESVTEAL---TVAKKHLTQRIQNLNDKVEKQNEISKDI--RKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (238)
Q Consensus       134 qLe~Vs~sL---~~tKkhLsqRI~~vd~kld~~~eis~~i--~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (238)
                      .|+.+.+.|   .....+|..+|+.+..+|+++.++....  -+.+. -...+.+|..+|.+++..+..|..|+..|+
T Consensus        15 ~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~-y~~KL~~ikkrm~~l~~~l~~lk~R~~~L~   91 (92)
T PF14712_consen   15 DLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDP-YVKKLVNIKKRMSNLHERLQKLKKRADKLQ   91 (92)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            444444444   4556789999999999999998866544  33444 788899999999999999999999998774

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=93.76  E-value=3  Score=37.68  Aligned_cols=89  Identities=13%  Similarity=0.272  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 026425          124 MATAVSNLNKHLES-VTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (238)
Q Consensus       124 ms~Av~sv~kqLe~-Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (238)
                      |++|...+-.+-+. +...-..+......+++.+........+-....++++.+++..+.....++.+++.....||..|
T Consensus       167 L~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l  246 (312)
T PF00038_consen  167 LSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQL  246 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhH
Confidence            88888888888774 44555678888888999999888888888889999999999999999999999999999999999


Q ss_pred             hhhhhhhHHH
Q 026425          203 DSLADKQDIT  212 (238)
Q Consensus       203 ~~ie~kQd~t  212 (238)
                      ..++..-...
T Consensus       247 ~~le~~~~~~  256 (312)
T PF00038_consen  247 RELEQRLDEE  256 (312)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8887554443

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=93.53  E-value=1.7  Score=36.34  Aligned_cols=63  Identities=24%  Similarity=0.294  Sum_probs=52.1

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhH
Q 026425          148 HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQD  210 (238)
Q Consensus       148 hLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd  210 (238)
                      .|+.||+-|...|++...--+.+.+.+.++....+++..-+..+..--..+|.|++.++.+-.
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~  139 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYK  139 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            377788888888888888888888888888888888888888888888888888888876643

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=93.42  E-value=1.9  Score=38.47  Aligned_cols=91  Identities=13%  Similarity=0.188  Sum_probs=63.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHH
Q 026425          134 HLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITN  213 (238)
Q Consensus       134 qLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn  213 (238)
                      ++.++......+..+.++||++.++.-++..+-.++.++++..++.-.++...-+++.+.-+..|+.+++.++..+.--.
T Consensus        25 ~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~  104 (251)
T PF11932_consen   25 QAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELV  104 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555666677788888888888887777777777888777777777777777777777777777777775444333


Q ss_pred             ----HHHHHHHHHhh
Q 026425          214 ----IGMYLLCNFVD  224 (238)
Q Consensus       214 ----~GV~~Lc~f~~  224 (238)
                          .=+..|-+|++
T Consensus       105 p~m~~m~~~L~~~v~  119 (251)
T PF11932_consen  105 PLMEQMIDELEQFVE  119 (251)
T ss_pred             HHHHHHHHHHHHHHh
Confidence                24455556665

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits

Probab=93.40  E-value=0.61  Score=36.44  Aligned_cols=77  Identities=22%  Similarity=0.261  Sum_probs=49.4

Q ss_pred             CeEEEeCCCCCcceeeh-hhhhHhhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 026425           76 QIFVRNENSGGNATSLM-IPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQ  154 (238)
Q Consensus        76 ~iTvvn~~sGg~~~~~i-vpaA~vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~  154 (238)
                      .-+.|+-|+|.-+.+-| -|-=++.-+|.||+-.+-                               +..|.+.+..||+
T Consensus        39 ~~~lvplg~~~~v~g~i~~~~~vlV~lG~~~~vE~s-------------------------------~~eA~~~l~~r~~   87 (120)
T PF02996_consen   39 HEILVPLGSGVFVPGKIPDTDKVLVSLGAGYYVEMS-------------------------------LEEAIEFLKKRIK   87 (120)
T ss_dssp             -EEEEEECTTEEEEEE-SSTTEEEEEEETTEEEEEE-------------------------------HHHHHHHHHHHHH
T ss_pred             ceeeecCCCCeEEEEEeCCCCEEEEEeeCCeEEEec-------------------------------HHHHHHHHHHHHH
Confidence            44456666662222222 122234579999998883                               5788888888888


Q ss_pred             hhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 026425          155 NLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (238)
Q Consensus       155 ~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (238)
                      .+..++++..+-.+.+++++..+...+++
T Consensus        88 ~l~~~~~~l~~~~~~~~~~~~~~~~~l~~  116 (120)
T PF02996_consen   88 ELEEQLEKLEKELAELQAQIEQLEQTLQQ  116 (120)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888877777777666665554443

Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.

>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=93.38  E-value=0.33  Score=45.74  Aligned_cols=98  Identities=11%  Similarity=0.270  Sum_probs=61.1

Q ss_pred             cceeehhhhhHhhhhhee-eeeeeccccchhHH--------HhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH
Q 026425           87 NATSLMIPAATLGALGYG-YMWWKGLSFADLMY--------VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN  157 (238)
Q Consensus        87 ~~~~~ivpaA~vGavGYg-YmwWKGws~sDlMy--------VTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd  157 (238)
                      .|--|++-|++.+++.|+ |-.||-|=+| +||        .-|+.|.+=...+.|-+.++-+.++++++.++..-+.++
T Consensus        82 rwrdy~vmAvi~aGi~y~~y~~~K~YV~P-~~l~~~~~k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v~q~~~~qq~Els  160 (300)
T KOG2629|consen   82 RWRDYFVMAVILAGIAYAAYRFVKSYVLP-RFLGESKDKLEADKRQLDDQFDKAAKSLNALMDEVAQVSQLLATQQSELS  160 (300)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHHH-HhhCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566667788888885 7789988544 333        345566666666777777777777777777766666666


Q ss_pred             HhHHHHHHHHHHHHHHHHHhhhhHHHhh
Q 026425          158 DKVEKQNEISKDIRKNVEEACDDLFKVE  185 (238)
Q Consensus       158 ~kld~~~eis~~i~~eV~~v~~d~~~i~  185 (238)
                      ..|+...+..-++......+++++..|.
T Consensus       161 ~~L~~l~~~~~~~s~~~~k~esei~~Ik  188 (300)
T KOG2629|consen  161 RALASLKNTLVQLSRNIEKLESEINTIK  188 (300)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            6666665554444444444444443333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=93.23  E-value=6  Score=38.14  Aligned_cols=49  Identities=20%  Similarity=0.148  Sum_probs=28.8

Q ss_pred             ccccceeeccCCCc---chHH-----HHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHHH-hhh
Q 026425           18 LGYTGTILVKDGKL---PELL-----RELQSLVERLSKSGEQDNFTDAIKDQLNRLKFEC-QRA   72 (238)
Q Consensus        18 AG~~GSvl~k~G~L---sd~~-----g~lq~~~k~~~k~g~~~~~~d~L~aQV~~L~~El-~la   72 (238)
                      +|++..|.+++|..   .|++     ..++.-+..++.      ....+.+++.||.-|+ .+.
T Consensus        67 ~G~v~~i~V~eG~~V~~G~~L~~ld~~~~~~~~~~~~~------~~~~~~~~~~rL~a~~~~~~  124 (457)
T TIGR01000        67 NNAIKENYLKENKFVKKGDLLVVYDNGNEENQKQLLEQ------QLDNLKDQKKSLDTLKQSIE  124 (457)
T ss_pred             CcEEEEEEcCCCCEecCCCEEEEECchHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHh
Confidence            47888888888864   3332     233333333332      2566777777777777 443

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PRK11637 AmiB activator; Provisional

Probab=93.22  E-value=1.6  Score=41.76  Aligned_cols=78  Identities=18%  Similarity=0.299  Sum_probs=52.9

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHH---HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          129 SNLNKHLESVTEALTVAKKHLT---QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       129 ~sv~kqLe~Vs~sL~~tKkhLs---qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +..-++|+++...|...++.+.   +++..+..++++...=...+.+++.+++.+++.+..+++.++.-+..++.+|+..
T Consensus        43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~  122 (428)
T PRK11637         43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQ  122 (428)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677788888888777777666   6666666666666555556666666666666666666666666666666666655


Q ss_pred             h
Q 026425          206 A  206 (238)
Q Consensus       206 e  206 (238)
                      +
T Consensus       123 ~  123 (428)
T PRK11637        123 E  123 (428)
T ss_pred             H
Confidence            4

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=93.21  E-value=0.12  Score=49.13  Aligned_cols=86  Identities=14%  Similarity=0.323  Sum_probs=31.7

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHH---HHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhh
Q 026425          123 SMATAVSNLNKHLESVTEALTVAK---KHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLD  199 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~sL~~tK---khLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le  199 (238)
                      +|+.++.++...|..++..|+.-+   .+|+..|..+...+.+.......++..|..+..|+++.+.||-..--.|..||
T Consensus        67 ~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdLe  146 (326)
T PF04582_consen   67 DLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDLE  146 (326)
T ss_dssp             ---------------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhHH
Confidence            444455555555555554444333   34556666666677777777777788888888888888888888888888888


Q ss_pred             hhhhhhhhh
Q 026425          200 GKIDSLADK  208 (238)
Q Consensus       200 ~Ki~~ie~k  208 (238)
                      .|+..+|..
T Consensus       147 ~RV~~LEs~  155 (326)
T PF04582_consen  147 SRVKALESG  155 (326)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHhcC
Confidence            888888764

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=93.21  E-value=1.6  Score=36.31  Aligned_cols=31  Identities=23%  Similarity=0.381  Sum_probs=14.1

Q ss_pred             HHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 026425          170 IRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (238)
Q Consensus       170 i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (238)
                      +++++..++.|+..++.-|..+...+..||+
T Consensus        94 v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~  124 (126)
T PF07889_consen   94 VREDVSQIGDDVDSVQQMVEGLEGKIDEIEE  124 (126)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3444444444444444444444444444443

The region featured in this family is approximately 100 amino acids long.

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=93.19  E-value=1.3  Score=34.56  Aligned_cols=82  Identities=15%  Similarity=0.208  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHH
Q 026425          138 VTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMY  217 (238)
Q Consensus       138 Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~  217 (238)
                      |..+|.++-++|.+.|++|+..++.-.+.....    .++...+..++.|-..+-+-....+.+..++|..|.-....+.
T Consensus         2 ~~~~le~al~rL~~aid~LE~~v~~r~~~~~~~----~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~   77 (89)
T PF13747_consen    2 VTYSLEAALTRLEAAIDRLEKAVDRRLERDRKR----DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLD   77 (89)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhh----hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            455677777777777888887777666544433    5556666677777777777777778888888887777666666


Q ss_pred             HHHHHh
Q 026425          218 LLCNFV  223 (238)
Q Consensus       218 ~Lc~f~  223 (238)
                      ...+-+
T Consensus        78 ~a~e~I   83 (89)
T PF13747_consen   78 SAIETI   83 (89)
T ss_pred             HHHHHH
Confidence            655544

>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []

Probab=92.61  E-value=3.7  Score=34.29  Aligned_cols=78  Identities=19%  Similarity=0.315  Sum_probs=55.8

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHH----------HHHHHhhhhHHHhhhhHHHH
Q 026425          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIR----------KNVEEACDDLFKVEHNLKDL  191 (238)
Q Consensus       122 r~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~----------~eV~~v~~d~~~i~~dv~~v  191 (238)
                      |.+-+-|.-...||.+-.+.++....+|.+||-.+|..+....+....-+          ++|.+++..+++++.-++++
T Consensus        27 ~~~l~Lc~R~Q~HL~~cA~~Va~~Q~~L~~riKevd~~~~~l~~~~~erqk~~~k~ae~L~kv~els~~L~~~~~lL~~~  106 (131)
T PF10158_consen   27 RPVLRLCSRYQEHLNQCAEAVAFDQNALAKRIKEVDQEIAKLLQQMVERQKRFAKFAEQLEKVNELSQQLSRCQSLLNQT  106 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67788999999999999999999999999999999998776554444333          23555555555555544444


Q ss_pred             HHHHHhhh
Q 026425          192 QSMIYCLD  199 (238)
Q Consensus       192 ~~~V~~Le  199 (238)
                      =..++.|.
T Consensus       107 v~~ie~LN  114 (131)
T PF10158_consen  107 VPSIETLN  114 (131)
T ss_pred             HHHHHHHH
Confidence            44444443

The exact function of these proteins is not known.

>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins

Probab=92.03  E-value=1.9  Score=32.68  Aligned_cols=29  Identities=14%  Similarity=0.320  Sum_probs=14.3

Q ss_pred             HHHhHhhHHHHHHHHHHhhHHHHHHHHHH
Q 026425          117 MYVTRKSMATAVSNLNKHLESVTEALTVA  145 (238)
Q Consensus       117 MyVTkr~ms~Av~sv~kqLe~Vs~sL~~t  145 (238)
                      ++.+-+++....+.+.+.++.+.+.+...
T Consensus        17 l~~~l~~l~~~l~~~~~ti~~l~~~~~~i   45 (90)
T PF06103_consen   17 LIKVLKKLKKTLDEVNKTIDTLQEQVDPI   45 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            34455555555555555544444444333

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=91.63  E-value=3.3  Score=40.79  Aligned_cols=95  Identities=16%  Similarity=0.244  Sum_probs=67.5

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHH
Q 026425          133 KHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDIT  212 (238)
Q Consensus       133 kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~t  212 (238)
                      ++|+|....|++..    ++|....++..+...-.+..++++..+..-+.++..|++.++..+..++.++.-++..+ ..
T Consensus        38 ~~l~q~q~ei~~~~----~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~-r~  112 (420)
T COG4942          38 KQLKQIQKEIAALE----KKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE-RE  112 (420)
T ss_pred             HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH-HH
Confidence            77777777776554    44555566666666667777788888888888888888888888888899988887655 77


Q ss_pred             HHHHHHHHHHhhcccccccc
Q 026425          213 NIGMYLLCNFVDGKKGRTTE  232 (238)
Q Consensus       213 n~GV~~Lc~f~~~~~~~~p~  232 (238)
                      ..++....--+-.+.++=|.
T Consensus       113 qr~~La~~L~A~~r~g~~p~  132 (420)
T COG4942         113 QRRRLAEQLAALQRSGRNPP  132 (420)
T ss_pred             HHHHHHHHHHHHHhccCCCC
Confidence            77776655444444444443

>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional

Probab=91.51  E-value=1  Score=43.75  Aligned_cols=54  Identities=17%  Similarity=0.238  Sum_probs=24.0

Q ss_pred             hhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhH
Q 026425           99 GALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKV  160 (238)
Q Consensus        99 GavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kl  160 (238)
                      -++|+||.|| |.       --.......-+.+..+|+.......+.+..|.+.+..++.++
T Consensus        48 la~g~g~y~~-~~-------qq~~~~~~~~~~L~~ql~~~~~~~~~~~~~l~~~~~~~~~~l  101 (390)
T PRK10920         48 LAAGAGLYYH-GK-------QQAQNQTATNDALANQLTALQKAQESQKQELEGILKQQAKAL  101 (390)
T ss_pred             HHHhhHHHHH-HH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3666666555 21       111223444444555555554444444444444444433333

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=91.04  E-value=4.3  Score=38.99  Aligned_cols=69  Identities=13%  Similarity=0.270  Sum_probs=42.6

Q ss_pred             hhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 026425          115 DLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (238)
Q Consensus       115 DlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (238)
                      |=|=-=+.+++++...+..||+.+++.+..+...+..|=..+..+++....-=+..++++.++++...+
T Consensus       223 eqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~  291 (359)
T PF10498_consen  223 EQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQ  291 (359)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445566777777777888888888877777777666666555555555444444444444444433333

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=90.92  E-value=2.8  Score=33.38  Aligned_cols=65  Identities=17%  Similarity=0.305  Sum_probs=47.3

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh--hhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHH
Q 026425          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV--EHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCN  221 (238)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i--~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~  221 (238)
                      ..+++.+++++++       ..+.++.+..++.+.  ..|+..++-.+..++++++.+++.=+.-++-+.+|.+
T Consensus        34 ~~~~~~l~~~~~~-------~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lLlE  100 (106)
T PF10805_consen   34 REDIEKLEERLDE-------HDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLLLE  100 (106)
T ss_pred             HHHHHHHHHHHHH-------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555444443       355577777777887  8888888888888899999888888777777777765

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []

Probab=90.72  E-value=8.6  Score=31.86  Aligned_cols=21  Identities=14%  Similarity=0.007  Sum_probs=14.5

Q ss_pred             chHHHHHHHHHHHHHH-hhhcC
Q 026425           54 FTDAIKDQLNRLKFEC-QRASS   74 (238)
Q Consensus        54 ~~d~L~aQV~~L~~El-~las~   74 (238)
                      +...+...++.++.+. .|+-+
T Consensus        41 ~i~~~~~~i~~ia~qt~lLalN   62 (213)
T PF00015_consen   41 DISEILSLINEIAEQTNLLALN   62 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHhhhh
Confidence            4566667777888888 66654

Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.

>PF04513 Baculo_PEP_C: Baculovirus polyhedron envelope protein, PEP, C terminus ; InterPro: IPR007601 Polyhedra are large crystalline occlusion bodies containing nucleopolyhedrovirus virions, and surrounded by an electron-dense structure called the polyhedron envelope or polyhedron calyx

Probab=89.70  E-value=7.7  Score=33.04  Aligned_cols=83  Identities=14%  Similarity=0.295  Sum_probs=59.3

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHH-HHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 026425          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEK-QNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~-~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (238)
                      .++..++.+-.||..+.+.|...-..+..|++.+-..+++ ...+++.++.|++.+..++...-+.|-.+......|=..
T Consensus        35 ql~~~~d~i~~~L~~l~~~l~~ll~~l~~~l~~l~~~L~~aln~Lq~~~rneLtnlnsil~nL~ssvTNin~tLnnLl~a  114 (140)
T PF04513_consen   35 QLTTILDAIQTQLNALSTDLTNLLADLDTRLDTLLTNLNDALNQLQDTLRNELTNLNSILNNLTSSVTNINATLNNLLQA  114 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4567777778888888888888888777777777766654 345667788888888888777777776666666655555


Q ss_pred             hhhh
Q 026425          202 IDSL  205 (238)
Q Consensus       202 i~~i  205 (238)
                      +.-+
T Consensus       115 ln~l  118 (140)
T PF04513_consen  115 LNNL  118 (140)
T ss_pred             HHHh
Confidence            5433

The polyhedron envelope (associated) protein PEP is thought to be an integral part of the polyhedron envelope. PEP is concentrated at the surface of polyhedra, and is thought to be important for the proper formation of the periphery of polyhedra. It is thought that PEP may stabilise polyhedra and protect them from fusion or aggregation [].; GO: 0005198 structural molecule activity, 0019028 viral capsid, 0019031 viral envelope

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.69  E-value=4  Score=37.97  Aligned_cols=68  Identities=16%  Similarity=0.347  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 026425          136 ESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (238)
Q Consensus       136 e~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~  203 (238)
                      |.-+..+...++.+...|+.+|.++++...=....++++++.+.++.....+|+.+..-+......+.
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~  104 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLK  104 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455667778888889999999999988888888888888888888888888887776665554443

>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene

Probab=89.49  E-value=8.8  Score=30.89  Aligned_cols=15  Identities=13%  Similarity=0.271  Sum_probs=5.8

Q ss_pred             HHHHHHHHHhhHHHH
Q 026425          125 ATAVSNLNKHLESVT  139 (238)
Q Consensus       125 s~Av~sv~kqLe~Vs  139 (238)
                      .+.+.++..+++.+.
T Consensus         4 ~~~~~~l~~~~~~l~   18 (202)
T PF01442_consen    4 DDRLDSLSSRTEELE   18 (202)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333334433333333

This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....

>PHA02562 46 endonuclease subunit; Provisional

Probab=89.08  E-value=9.2  Score=37.07  Aligned_cols=50  Identities=14%  Similarity=0.144  Sum_probs=22.3

Q ss_pred             HHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 026425          157 NDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (238)
Q Consensus       157 d~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (238)
                      ..++.+........++++.........+..++.+++..+..++.++.+++
T Consensus       336 ~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~  385 (562)
T PHA02562        336 SKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQ  385 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHH
Confidence            33333333333333444444444444455555555555554444444433

>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins

Probab=88.57  E-value=10  Score=35.54  Aligned_cols=99  Identities=15%  Similarity=0.224  Sum_probs=74.3

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh--------------
Q 026425          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE--------------  185 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~--------------  185 (238)
                      .-+.+-.=..++..|+|.++..|...+.+|...+..+|.--++..+..+++..-+...+..+..+.              
T Consensus        85 ~~~~~~~ky~sv~~qId~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I~ag~~~~~~l~~~~~~~~~~~~~~d  164 (333)
T PF05816_consen   85 SLERYFAKYQSVQSQIDKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYIAAGELKLEELEAELLPALQADAEGD  164 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhccccC
Confidence            344444556899999999999999999999999999998877777766666655444333333333              


Q ss_pred             ----hhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHH
Q 026425          186 ----HNLKDLQSMIYCLDGKIDSLADKQDITNIGMYL  218 (238)
Q Consensus       186 ----~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~  218 (238)
                          .....+.+.+..||.|+..++--+..+..+.--
T Consensus       165 ~~~~q~~~~~~~~l~~leqRi~DL~~~~~va~Q~~pq  201 (333)
T PF05816_consen  165 QMDAQELADLEQALFRLEQRIQDLQLSRQVAIQTAPQ  201 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence                234667888999999999999888888777644

TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=88.02  E-value=12  Score=33.29  Aligned_cols=71  Identities=11%  Similarity=0.197  Sum_probs=48.9

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 026425          130 NLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (238)
Q Consensus       130 sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (238)
                      ...++..+--+.+...|..|.++++.+...++....-.+..++.|...+..+..+..+++++..+=..|..
T Consensus        35 ~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p  105 (251)
T PF11932_consen   35 QAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVP  105 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555666777778888888888888777777777777777777777777777777776644444443

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material

Probab=87.74  E-value=4.4  Score=33.89  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.2

Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhh
Q 026425          185 EHNLKDLQSMIYCLDGKIDSLADK  208 (238)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~k  208 (238)
                      ..||+.++..|..|+.+|+++..+
T Consensus       108 ~~dv~~L~~rId~L~~~v~~l~~~  131 (132)
T PF05597_consen  108 RKDVEALSARIDQLTAQVERLANK  131 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcC
Confidence            589999999999999998887765

PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=87.70  E-value=8.5  Score=34.27  Aligned_cols=115  Identities=10%  Similarity=0.144  Sum_probs=71.8

Q ss_pred             hhcCCCeEEEeCCCCCcceeehhhhhHhhhhheeeeeeeccccchhHHH--hHhhHHHHHHHHHHhhHHHHHHHHHHHHH
Q 026425           71 RASSGQIFVRNENSGGNATSLMIPAATLGALGYGYMWWKGLSFADLMYV--TRKSMATAVSNLNKHLESVTEALTVAKKH  148 (238)
Q Consensus        71 las~r~iTvvn~~sGg~~~~~ivpaA~vGavGYgYmwWKGws~sDlMyV--Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkh  148 (238)
                      +-+.-++||+....+++|+=.--+   =|-.||.+-|    =+++-.=+  -=..+.+-++.+..+|++.......-+.+
T Consensus        50 l~~G~~v~vl~~~~~~~w~~Vr~~---~G~~GWV~~~----~Ls~~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~  122 (206)
T PRK10884         50 LNAGEEVTLLQVNANTNYAQIRDS---KGRTAWIPLK----QLSTTPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAE  122 (206)
T ss_pred             EcCCCEEEEEEEcCCCCEEEEEeC---CCCEEeEEHH----HhcCCccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            344567787764433344222211   1445554433    23322211  12357777777788888888888888888


Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHH
Q 026425          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQ  192 (238)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~  192 (238)
                      +.++++..+....+.++=-++.++++..++.++....-+.+.++
T Consensus       123 l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~  166 (206)
T PRK10884        123 MQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQ  166 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888887777777778888888866666555555554

>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []

Probab=87.59  E-value=15  Score=30.43  Aligned_cols=20  Identities=10%  Similarity=0.240  Sum_probs=7.2

Q ss_pred             HHHhhhhHHHHHHHHHhhhh
Q 026425          181 LFKVEHNLKDLQSMIYCLDG  200 (238)
Q Consensus       181 ~~~i~~dv~~v~~~V~~Le~  200 (238)
                      +..|...++.+...+..+..
T Consensus       137 l~~i~~~~~~i~~~i~~i~~  156 (213)
T PF00015_consen  137 LEEIAESVEEISDSIEEISE  156 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhHHhhhhHHHHh
Confidence            33333333333333333333

Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=87.44  E-value=2.5  Score=37.51  Aligned_cols=14  Identities=7%  Similarity=0.375  Sum_probs=6.3

Q ss_pred             HHHHHHhhHHhHHH
Q 026425          149 LTQRIQNLNDKVEK  162 (238)
Q Consensus       149 LsqRI~~vd~kld~  162 (238)
                      |.-|||+++..+|+
T Consensus        84 lE~kvD~lee~fdd   97 (189)
T TIGR02132        84 LEEKVDLIEEFFDD   97 (189)
T ss_pred             HHHHHHHHHHHHHH
Confidence            34444444444444

This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.

>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology

Probab=87.38  E-value=9.8  Score=39.78  Aligned_cols=35  Identities=11%  Similarity=0.301  Sum_probs=25.3

Q ss_pred             HHHHHHHHhhHHHHHH-HHHHHHHHHHHHHhhHHhH
Q 026425          126 TAVSNLNKHLESVTEA-LTVAKKHLTQRIQNLNDKV  160 (238)
Q Consensus       126 ~Av~sv~kqLe~Vs~s-L~~tKkhLsqRI~~vd~kl  160 (238)
                      ..++++.+|++++-.. ...++.|+...|++.+..+
T Consensus       187 ~~l~~~~~qi~~l~~~ny~~~~~~v~~~L~~~~~~l  222 (806)
T PF05478_consen  187 TFLNDTPQQIDHLLVQNYSELKDHVSSDLDNIGSLL  222 (806)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhccchh
Confidence            3445667788887777 7788888888888777653

Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane

>PRK04406 hypothetical protein; Provisional

Probab=87.23  E-value=4.7  Score=30.62  Aligned_cols=54  Identities=13%  Similarity=0.195  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 026425          144 VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (238)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (238)
                      .+...+.+||..|..++--|.......-+.|++-+..+......++.+.+-+..
T Consensus         4 ~~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~   57 (75)
T PRK04406          4 KTIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKN   57 (75)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            355568889999999988888888888888877776666655555555443333

>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins

Probab=87.21  E-value=9  Score=28.90  Aligned_cols=56  Identities=16%  Similarity=0.254  Sum_probs=26.8

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +..++.+.+++|....=...+-++++++.+|+...-..++.+-+.|..++..+.++
T Consensus        32 ~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v~~~g~~v~~l   87 (90)
T PF06103_consen   32 NKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAVADLGESVSEL   87 (90)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33334444444443333333444444444444555555555555555555555544

>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins

Probab=87.15  E-value=8.3  Score=29.75  Aligned_cols=63  Identities=16%  Similarity=0.259  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHH----HHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 026425          142 LTVAKKHLTQRIQNLNDKVEKQNEISKD----IRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (238)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~----i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (238)
                      +-.+.+++++|++.=...|.++++.++.    ++++...=...+.++..|++.++..++.|..|+..
T Consensus        16 ~l~~Q~~~l~~ln~tn~~L~~~n~~s~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~kl~~   82 (88)
T PF10241_consen   16 ILALQAQTLGRLNKTNEELLNLNDLSQQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKAKLAK   82 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344566677777766666666665543    34555555566777899999999999999998863

There is a characteristic KxDL motif towards the C terminus. The function is unknown.

>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation

Probab=87.00  E-value=7.5  Score=39.50  Aligned_cols=90  Identities=12%  Similarity=0.279  Sum_probs=65.4

Q ss_pred             cchhHHH----hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhH
Q 026425          113 FADLMYV----TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNL  188 (238)
Q Consensus       113 ~sDlMyV----Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv  188 (238)
                      ++++.|.    +||||..-++   +.+=..+..+-+.=..+..+|+++...++++++....+++.+...+.+...+-.++
T Consensus         6 L~~~~~~nt~~aRr~LR~~iE---~~~l~~~~~~L~~f~~v~~~l~~~~~~v~~l~~~~~~~~~~l~~~~~~t~~ll~~~   82 (618)
T PF06419_consen    6 LSEFGFENTLEARRNLRSDIE---KRLLKINQEFLKEFSPVNRQLKRLQSDVDKLNSSCDQMQDRLSAAKSETSDLLEEA   82 (618)
T ss_pred             hcccccCCcHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555    8999987654   45555666666666778889999999999999999999999988887777766666


Q ss_pred             HHHHHHHHhhhhhhhhhhhhhHHH
Q 026425          189 KDLQSMIYCLDGKIDSLADKQDIT  212 (238)
Q Consensus       189 ~~v~~~V~~Le~Ki~~ie~kQd~t  212 (238)
                      ..+       -.+...++.||...
T Consensus        83 ~~L-------~~~~~~~~~k~~ll   99 (618)
T PF06419_consen   83 SEL-------REQKEELELKKKLL   99 (618)
T ss_pred             HHH-------HHHHHHHHHHHHHH
Confidence            666       44555555555443

>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer)

Probab=86.69  E-value=18  Score=30.44  Aligned_cols=20  Identities=10%  Similarity=0.036  Sum_probs=11.6

Q ss_pred             hHHHHHHHHHHHHHH-hhhcC
Q 026425           55 TDAIKDQLNRLKFEC-QRASS   74 (238)
Q Consensus        55 ~d~L~aQV~~L~~El-~las~   74 (238)
                      ......+++.+.+++ .|+.+
T Consensus        93 i~~~~~~i~~~a~~~~~la~n  113 (262)
T smart00283       93 IGEIVSVIDDIADQTNLLALN  113 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444555666666776 55543

Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.

>PRK09039 hypothetical protein; Validated

Probab=86.66  E-value=12  Score=35.42  Aligned_cols=59  Identities=15%  Similarity=0.202  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhh
Q 026425          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDG  200 (238)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~  200 (238)
                      .......+..|+..+.++|++.+..+....-+|..++..++.++.-+..++..+...|.
T Consensus       107 ~~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~  165 (343)
T PRK09039        107 LAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEK  165 (343)
T ss_pred             hhhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334477888888888888888887776666655555555555555444444444443

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=86.43  E-value=14  Score=32.81  Aligned_cols=69  Identities=16%  Similarity=0.259  Sum_probs=48.2

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHH
Q 026425          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYL  218 (238)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~  218 (238)
                      ..||+.|..++.+...+.........++...+..+..|+......+..+|.|+..++..-.....-+.-
T Consensus        91 eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~  159 (237)
T PF00261_consen   91 EERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKS  159 (237)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHH
Confidence            445666666666666777777777778888888888888888888888888887777655544444433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra []

Probab=86.31  E-value=3.5  Score=31.71  Aligned_cols=22  Identities=14%  Similarity=0.365  Sum_probs=9.4

Q ss_pred             hhhhHHHHHHHHHhhhhhhhhh
Q 026425          184 VEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       184 i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +..-++.+-..+..|+.++..|
T Consensus        40 l~~klDa~~~~l~~l~~~V~~I   61 (75)
T PF05531_consen   40 LNKKLDAQSAQLTTLNTKVNEI   61 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444433

; GO: 0019028 viral capsid

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=86.20  E-value=20  Score=30.55  Aligned_cols=31  Identities=13%  Similarity=0.222  Sum_probs=21.3

Q ss_pred             HHhHhhHHHHHHHHHHhhHHHHHHHHHHHHH
Q 026425          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKH  148 (238)
Q Consensus       118 yVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkh  148 (238)
                      +|||..+.+..-..-..+.++-..+....++
T Consensus        43 ~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~   73 (177)
T PF07798_consen   43 LVTKSDLENQEYLFKAAIAELRSELQNSRKS   73 (177)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6788888877766666666666666555444

>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

Probab=86.19  E-value=4  Score=41.76  Aligned_cols=19  Identities=16%  Similarity=0.352  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHhhHHhHHHH
Q 026425          145 AKKHLTQRIQNLNDKVEKQ  163 (238)
Q Consensus       145 tKkhLsqRI~~vd~kld~~  163 (238)
                      +.+.+++|+..++.++.+.
T Consensus       379 ~~~~~~~~l~~le~~l~~~  397 (656)
T PRK06975        379 SVHQLDSQFAQLDGKLADA  397 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444433

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=85.99  E-value=9.8  Score=38.10  Aligned_cols=79  Identities=15%  Similarity=0.295  Sum_probs=48.1

Q ss_pred             heeeeeeeccccchhHHHhH--------------------hhHHHHHHHHHHhhHHHHHHHHH---HHHHHHHHHHhhHH
Q 026425          102 GYGYMWWKGLSFADLMYVTR--------------------KSMATAVSNLNKHLESVTEALTV---AKKHLTQRIQNLND  158 (238)
Q Consensus       102 GYgYmwWKGws~sDlMyVTk--------------------r~ms~Av~sv~kqLe~Vs~sL~~---tKkhLsqRI~~vd~  158 (238)
                      ||==|-=+|..|+.+=.-.+                    +.....+..+.++++++|+.|..   ||+...+....+.+
T Consensus       238 gy~~m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~  317 (569)
T PRK04778        238 GYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPD  317 (569)
T ss_pred             HHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            44446666777876532222                    23345566777888888887763   66666666666666


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhh
Q 026425          159 KVEKQNEISKDIRKNVEEACDD  180 (238)
Q Consensus       159 kld~~~eis~~i~~eV~~v~~d  180 (238)
                      .++...+-...++.++..++..
T Consensus       318 ~l~~~~e~~~~l~~Ei~~l~~s  339 (569)
T PRK04778        318 FLEHAKEQNKELKEEIDRVKQS  339 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHc
Confidence            6666666666665555555544

>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]

Probab=85.85  E-value=8.5  Score=26.71  Aligned_cols=54  Identities=19%  Similarity=0.326  Sum_probs=31.8

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 026425          151 QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (238)
Q Consensus       151 qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (238)
                      +.|+.+..++.+.+++...|.++|.+=..-+.+|..+++.....+..=-.+|..
T Consensus         4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~k   57 (63)
T PF05739_consen    4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLKK   57 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666666666666666666666666666665555555444444443

Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....

>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]

Probab=85.75  E-value=12  Score=36.01  Aligned_cols=98  Identities=13%  Similarity=0.219  Sum_probs=68.6

Q ss_pred             ecccc-chhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhh
Q 026425          109 KGLSF-ADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHN  187 (238)
Q Consensus       109 KGws~-sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~d  187 (238)
                      |-|.+ -|=|---|+|...++..++-+|+.++..+..+-.++.+|=..+...|.-...--+...++..++++.-.+...+
T Consensus       223 kDWR~H~~QM~s~~~nIe~~~~~~~~~Ldklh~eit~~LEkI~SREK~lNnqL~~l~q~fr~a~~~lse~~e~y~q~~~g  302 (384)
T KOG0972|consen  223 KDWRLHLEQMNSMHKNIEQKVGNVGPYLDKLHKEITKALEKIASREKSLNNQLASLMQKFRRATDTLSELREKYKQASVG  302 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            44544 36788899999999999999999999999999999998888888777655444444555666666655555555


Q ss_pred             HHH----HHHHHHhhhhhhhhhh
Q 026425          188 LKD----LQSMIYCLDGKIDSLA  206 (238)
Q Consensus       188 v~~----v~~~V~~Le~Ki~~ie  206 (238)
                      |.+    +.+++..+|.+=.+||
T Consensus       303 v~~rT~~L~eVm~e~E~~KqemE  325 (384)
T KOG0972|consen  303 VSSRTETLDEVMDEIEQLKQEME  325 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            432    4444445554444444

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=85.48  E-value=24  Score=35.33  Aligned_cols=38  Identities=26%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             cchHHHHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHHH
Q 026425           31 LPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRLKFEC   69 (238)
Q Consensus        31 Lsd~~g~lq~~~k~~~k~g~~~~~~d~L~aQV~~L~~El   69 (238)
                      +|+=+.+|+.-.+.+.++|=.=+| ..+..+++.|+++|
T Consensus       228 ~P~ql~el~~gy~~m~~~gy~~~~-~~i~~~i~~l~~~i  265 (569)
T PRK04778        228 LPDQLQELKAGYRELVEEGYHLDH-LDIEKEIQDLKEQI  265 (569)
T ss_pred             hhHHHHHHHHHHHHHHHcCCCCCC-CChHHHHHHHHHHH
Confidence            344444444444444433221133 34677888888888

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=85.46  E-value=8.3  Score=31.78  Aligned_cols=65  Identities=17%  Similarity=0.241  Sum_probs=53.4

Q ss_pred             HhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh
Q 026425          119 VTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV  184 (238)
Q Consensus       119 VTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i  184 (238)
                      .+|..+++-+-.+++..|.+.+.... ..+|...++.+..+.+..-++-+.--++|.+++.|+..+
T Consensus        44 ~~r~~l~~Eiv~l~~~~e~~~~~~~~-~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~Dl  108 (120)
T PF12325_consen   44 AERDELREEIVKLMEENEELRALKKE-VEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDL  108 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHH
Confidence            38999999999999998888555444 458999999999999999999999889998888666543

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []

Probab=85.35  E-value=18  Score=31.28  Aligned_cols=89  Identities=17%  Similarity=0.339  Sum_probs=54.4

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhh----hhHHHhhhhHHHHHHH
Q 026425          120 TRKSMATAVSNLNKHLESVTEAL-TVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC----DDLFKVEHNLKDLQSM  194 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL-~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~----~d~~~i~~dv~~v~~~  194 (238)
                      |-.++.+-++.....-+.+.+.+ ..+|..|.+.|..|-..+.+..+-++.+.+++...+    .|...+..|+..++..
T Consensus        78 ~~~~I~~Y~~~f~syY~~L~~~id~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~l~~D~~~l~~~~~~l~~~  157 (184)
T PF05791_consen   78 LNQDIINYNTTFQSYYDTLVEAIDQKDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFKDKLQKDSRNLKTDVDELQSI  157 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            55555555554444444444444 457888888888888777666666655555555444    4556677777777777


Q ss_pred             HHhhhhhhhhhhhh
Q 026425          195 IYCLDGKIDSLADK  208 (238)
Q Consensus       195 V~~Le~Ki~~ie~k  208 (238)
                      +.+-.+.|..++..
T Consensus       158 l~~~~g~I~~L~~~  171 (184)
T PF05791_consen  158 LAGENGDIPQLQKQ  171 (184)
T ss_dssp             HHHTT--HHHHHHH
T ss_pred             HhcccCCHHHHHHH
Confidence            77777777766543

Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.

>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices

Probab=85.21  E-value=21  Score=29.78  Aligned_cols=94  Identities=15%  Similarity=0.248  Sum_probs=63.2

Q ss_pred             HhhhhheeeeeeeccccchhHHHhH-hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH
Q 026425           97 TLGALGYGYMWWKGLSFADLMYVTR-KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE  175 (238)
Q Consensus        97 ~vGavGYgYmwWKGws~sDlMyVTk-r~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~  175 (238)
                      ++++++|.+              |. .++.+-.+++..+++++-..=..-+.+..++-+..+..|+++.+.-..+.+...
T Consensus        11 llss~sfaA--------------~~~~~v~~~l~~LEae~q~L~~kE~~r~~~~k~~ae~a~~~L~~~~~~~~~i~e~~~   76 (126)
T PF09403_consen   11 LLSSISFAA--------------TATASVESELNQLEAEYQQLEQKEEARYNEEKQEAEAAEAELAELKELYAEIEEKIE   76 (126)
T ss_dssp             --------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--------------ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            456777766              44 667777888888888888888888899999999999999999999999998877


Q ss_pred             HhhhhH--HHhhhh----HHHHHHHHHhhhhhhhh
Q 026425          176 EACDDL--FKVEHN----LKDLQSMIYCLDGKIDS  204 (238)
Q Consensus       176 ~v~~d~--~~i~~d----v~~v~~~V~~Le~Ki~~  204 (238)
                      .+..+-  .-++++    +.........||.+|..
T Consensus        77 kl~~~~~~r~yk~eYk~llk~y~~~~~~L~k~I~~  111 (126)
T PF09403_consen   77 KLKQDSKVRWYKDEYKELLKKYKDLLNKLDKEIAE  111 (126)
T ss_dssp             HHHHHGGGSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            776552  223333    44455666666666654

; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=85.13  E-value=10  Score=36.44  Aligned_cols=87  Identities=16%  Similarity=0.289  Sum_probs=57.6

Q ss_pred             ccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh-------HHhHHHHHHHHHHHHHHHHHhhhhHHHh
Q 026425          112 SFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNL-------NDKVEKQNEISKDIRKNVEEACDDLFKV  184 (238)
Q Consensus       112 s~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~v-------d~kld~~~eis~~i~~eV~~v~~d~~~i  184 (238)
                      +++..+-.||.-|..--+.+++.||.+.+    =-+||.++++.+       -++|.+..+--++...-|++....+.+|
T Consensus       231 ~I~~~~~~~~~~L~kl~~~i~~~lekI~s----REk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~I  306 (359)
T PF10498_consen  231 SIESALPETKSQLDKLQQDISKTLEKIES----REKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEI  306 (359)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            57888889999999988888887776554    445555555444       3444555555555556677777777777


Q ss_pred             hhhHHHHHHHHHhhhhhh
Q 026425          185 EHNLKDLQSMIYCLDGKI  202 (238)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki  202 (238)
                      ..+++.+++-+..=+.+|
T Consensus       307 seeLe~vK~emeerg~~m  324 (359)
T PF10498_consen  307 SEELEQVKQEMEERGSSM  324 (359)
T ss_pred             HHHHHHHHHHHHHhcCCC
Confidence            777777776655444444

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>smart00502 BBC B-Box C-terminal domain

Probab=84.83  E-value=15  Score=27.83  Aligned_cols=11  Identities=18%  Similarity=0.196  Sum_probs=4.6

Q ss_pred             HHHHHHHHHhh
Q 026425          214 IGMYLLCNFVD  224 (238)
Q Consensus       214 ~GV~~Lc~f~~  224 (238)
                      ..+..+|.|+.
T Consensus        89 ~~l~~~~~~~e   99 (127)
T smart00502       89 EKLSHAINFTE   99 (127)
T ss_pred             HHHHHHHHHHH
Confidence            33444444443

Coiled coil region C-terminal to (some) B-Box domains

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=84.82  E-value=16  Score=39.99  Aligned_cols=92  Identities=11%  Similarity=0.171  Sum_probs=67.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHH
Q 026425          134 HLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITN  213 (238)
Q Consensus       134 qLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn  213 (238)
                      ..++.-..+...-+...+++...+.++-+..+-.+.++++++.-.+.+..+..|++..+..+..++.++.+.+..-+-.-
T Consensus       292 ~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k  371 (1074)
T KOG0250|consen  292 KKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLK  371 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444555566666666666666677777888888888888889999999999999999988888888888


Q ss_pred             HHHHHHHHHhhc
Q 026425          214 IGMYLLCNFVDG  225 (238)
Q Consensus       214 ~GV~~Lc~f~~~  225 (238)
                      .-+.+||.-++.
T Consensus       372 ~~~d~l~k~I~~  383 (1074)
T KOG0250|consen  372 KEVDRLEKQIAD  383 (1074)
T ss_pred             HHHHHHHHHHHH
Confidence            888888887653

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=84.82  E-value=13  Score=33.34  Aligned_cols=87  Identities=15%  Similarity=0.225  Sum_probs=51.4

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhh
Q 026425          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKI  202 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki  202 (238)
                      .+....+.++++|......+..+|    .+++.++..++....=....+++++.+..+...+..+.+..+.-...|+..|
T Consensus        21 ~l~~~~e~~~~~L~~~~~~~~~~~----~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i   96 (264)
T PF06008_consen   21 KLLSSIEDLTNQLRSYRSKLNPQK----QQLDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFI   96 (264)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445556666666665555543    3445555555555555555666666666666666666666666666666666


Q ss_pred             hhhhhhhHHHH
Q 026425          203 DSLADKQDITN  213 (238)
Q Consensus       203 ~~ie~kQd~tn  213 (238)
                      ..+..+=.-..
T Consensus        97 ~~l~~~i~~l~  107 (264)
T PF06008_consen   97 QNLQDNIQELI  107 (264)
T ss_pred             HHHHHHHHHHH
Confidence            66655443333

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PRK13182 racA polar chromosome segregation protein; Reviewed

Probab=84.49  E-value=5.5  Score=34.65  Aligned_cols=62  Identities=10%  Similarity=0.267  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 026425          144 VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (238)
Q Consensus       144 ~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (238)
                      .-..-|..+.+.|..++++..+.-+...++|--  =.|=+=+.+++.+...+..||.+|..+|.
T Consensus        85 ~R~~lLe~~~~~l~~ri~eLe~~l~~kad~vvs--Yqll~hr~e~ee~~~~l~~le~~~~~~e~  146 (175)
T PRK13182         85 VDFEQLEAQLNTITRRLDELERQLQQKADDVVS--YQLLQHRREMEEMLERLQKLEARLKKLEP  146 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344556666666666777777767777888744  34677789999999999999999999764

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=83.93  E-value=4  Score=31.97  Aligned_cols=42  Identities=21%  Similarity=0.402  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHH
Q 026425          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK  183 (238)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~  183 (238)
                      +..|.+.|..|++.+...+++..+-...+++++..++..+.+
T Consensus        85 ~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~  126 (129)
T cd00890          85 LEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQ  126 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455568888888888888888877777777777776655544

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=83.62  E-value=5.8  Score=34.20  Aligned_cols=96  Identities=20%  Similarity=0.326  Sum_probs=45.0

Q ss_pred             ccchhHHHhHhhHHH---HHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhh
Q 026425          112 SFADLMYVTRKSMAT---AVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVE  185 (238)
Q Consensus       112 s~sDlMyVTkr~ms~---Av~sv~kqLe~Vs~sL~~tKkhLsq---RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~  185 (238)
                      ++.+..+..+..|+.   .+..+..+|-..+..+..-++.+..   +|..+...+....+=.+...+++.+....++.+.
T Consensus        71 ~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~  150 (194)
T PF08614_consen   71 SLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQ  150 (194)
T ss_dssp             -------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456667777776664   4677888888888888777766655   5555555565555566666788888888999999


Q ss_pred             hhHHHHHHHHHhhhhhhhhhhh
Q 026425          186 HNLKDLQSMIYCLDGKIDSLAD  207 (238)
Q Consensus       186 ~dv~~v~~~V~~Le~Ki~~ie~  207 (238)
                      +++..++--...+|.|+..++.
T Consensus       151 DE~~~L~l~~~~~e~k~~~l~~  172 (194)
T PF08614_consen  151 DELQALQLQLNMLEEKLRKLEE  172 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998873

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium

Probab=82.92  E-value=20  Score=31.36  Aligned_cols=85  Identities=14%  Similarity=0.213  Sum_probs=50.4

Q ss_pred             hhHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHhhHHhHHHHHHHHHHHHHH-HHHh-hhhHHHhhhhHHHHHHHHHhh
Q 026425          122 KSMATAVSNLNKHLESVTEAL-TVAKKHLTQRIQNLNDKVEKQNEISKDIRKN-VEEA-CDDLFKVEHNLKDLQSMIYCL  198 (238)
Q Consensus       122 r~ms~Av~sv~kqLe~Vs~sL-~~tKkhLsqRI~~vd~kld~~~eis~~i~~e-V~~v-~~d~~~i~~dv~~v~~~V~~L  198 (238)
                      .+| .+|++-+|++++.+... ...+.-++.-++.+...+.+...-...+-.+ |..+ ..+...+.+.+.....-.+.|
T Consensus        19 ~sl-s~~~~~~kqve~~~l~~lkqqqd~itk~veeLe~~~~q~~~~~s~~~~~~vk~L~k~~~~~l~d~inE~t~k~~El   97 (165)
T PF09602_consen   19 QSL-SLFASFMKQVEQQTLKKLKQQQDWITKQVEELEKELKQFKREFSDLYEEYVKQLRKATGNSLNDSINEWTDKLNEL   97 (165)
T ss_pred             HHH-HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344 46888889988876544 3334456666666666666555554444444 5555 234444555566666666666


Q ss_pred             hhhhhhhhh
Q 026425          199 DGKIDSLAD  207 (238)
Q Consensus       199 e~Ki~~ie~  207 (238)
                      ..+|..+--
T Consensus        98 ~~~i~el~~  106 (165)
T PF09602_consen   98 SAKIQELLL  106 (165)
T ss_pred             HHHHHHHHc
Confidence            666655543

The role of the protein may include amino acid storage [].

>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein

Probab=82.89  E-value=8.3  Score=31.29  Aligned_cols=44  Identities=20%  Similarity=0.305  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHhhhhHHH-hhhhHHHHHHHHHhhhhhhhhhhh
Q 026425          164 NEISKDIRKNVEEACDDLFK-VEHNLKDLQSMIYCLDGKIDSLAD  207 (238)
Q Consensus       164 ~eis~~i~~eV~~v~~d~~~-i~~dv~~v~~~V~~Le~Ki~~ie~  207 (238)
                      .++.+.+.+.|..+-.++.- ...||+.++..|..|+.+|..++.
T Consensus        73 ~~le~~~~~~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l~~  117 (118)
T TIGR01837        73 DKLEKAFDERVEQALNRLNIPSREEIEALSAKIEQLAVQVEELRR  117 (118)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45666677777666544432 348999999999999999988764

This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.

>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria

Probab=82.85  E-value=5  Score=29.54  Aligned_cols=47  Identities=19%  Similarity=0.185  Sum_probs=28.8

Q ss_pred             ehhhhhHhhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHH
Q 026425           91 LMIPAATLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTV  144 (238)
Q Consensus        91 ~ivpaA~vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~  144 (238)
                      +++=|++-+++||.|-==+|-       =||+.+.+....+..++++.++....
T Consensus         5 ~l~Ga~~Ga~~glL~aP~sG~-------e~R~~l~~~~~~~~~~~~~~~~~~~~   51 (74)
T PF12732_consen    5 FLAGAAAGAAAGLLFAPKSGK-------ETREKLKDKAEDLKDKAKDLYEEAKE   51 (74)
T ss_pred             HHHHHHHHHHHHHHhCCCCcH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334344445666666555554       37777888777777777666655544

Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.

>KOG1161 consensus Protein involved in vacuolar polyphosphate accumulation, contains SPX domain [Inorganic ion transport and metabolism]

Probab=82.76  E-value=4.9  Score=38.22  Aligned_cols=70  Identities=17%  Similarity=0.247  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHH
Q 026425          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQS  193 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~  193 (238)
                      ..++.|..+-++||.|+.=--+--..+..|++.|..+.|+ -..-+--+++..++++++..++.|+..+-.
T Consensus        45 ~e~dFv~~Ld~ELEKv~~F~lek~~el~~Rl~~L~e~~~~-~~~~~~~~~~~~~lr~~l~~~~~em~~L~~  114 (310)
T KOG1161|consen   45 DESDFVRLLDAELEKVNGFQLEKESELIIRLKELEEKIDA-LSLEPPSAEEMKELREELVDFHGEMVLLEN  114 (310)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-cccCCcchhHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999999999999999999874 111122235566777777777777766643

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=82.44  E-value=6.3  Score=29.07  Aligned_cols=51  Identities=24%  Similarity=0.355  Sum_probs=32.1

Q ss_pred             HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 026425          149 LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (238)
Q Consensus       149 LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (238)
                      +..||..|..|+--+.+......+.|++-+..       |+.++..+..|..||.+++
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~-------I~~L~~~l~~L~~rl~~~~   52 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQ-------IDRLQRQLRLLRERLRELE   52 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhc
Confidence            56788888888888877777777777666644       4445555555666666665

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=82.43  E-value=43  Score=31.25  Aligned_cols=94  Identities=22%  Similarity=0.332  Sum_probs=44.1

Q ss_pred             chhHHHhHhhHHHHHHHHHHhhHHHHHHHHHH---HHHHHHHHHhhHHhHHHHHH----HHHHHHHHHHHhhhhHHHhhh
Q 026425          114 ADLMYVTRKSMATAVSNLNKHLESVTEALTVA---KKHLTQRIQNLNDKVEKQNE----ISKDIRKNVEEACDDLFKVEH  186 (238)
Q Consensus       114 sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~t---KkhLsqRI~~vd~kld~~~e----is~~i~~eV~~v~~d~~~i~~  186 (238)
                      -+-+--....|.+-.+.+.++++.+.+.+...   +..|..++.++....++...    --...+.++.+...+++..+.
T Consensus       151 ~~~L~~~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~  230 (325)
T PF08317_consen  151 KEGLEENLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKK  230 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555666666667777666666554443   44455555555554333211    112233333333334443333


Q ss_pred             hHHHHHHHHHhhhhhhhhhhh
Q 026425          187 NLKDLQSMIYCLDGKIDSLAD  207 (238)
Q Consensus       187 dv~~v~~~V~~Le~Ki~~ie~  207 (238)
                      ++..++.-+..++.++..++.
T Consensus       231 ~l~el~~el~~l~~~i~~~~~  251 (325)
T PF08317_consen  231 ELAELQEELEELEEKIEELEE  251 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444443

>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS

Probab=82.37  E-value=6.2  Score=29.96  Aligned_cols=75  Identities=13%  Similarity=0.222  Sum_probs=41.0

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhh
Q 026425          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLD  199 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le  199 (238)
                      +++-+.+...-++..+......-....+.+..++++.=.+||=.      +++|....+.=+.+       .+..+..||
T Consensus         4 ~~~~~d~~~~~~~~~~~~~~~~~~e~e~~~r~~l~~~l~kldlV------tREEFd~q~~~L~~-------~r~kl~~LE   70 (79)
T PF04380_consen    4 PNKIFDDLAKQISEALPAAQGPREEIEKNIRARLQSALSKLDLV------TREEFDAQKAVLAR-------TREKLEALE   70 (79)
T ss_pred             chhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHCCCC------cHHHHHHHHHHHHH-------HHHHHHHHH
Confidence            44555555555666665555555566666666666666665533      34444444433333       444445556


Q ss_pred             hhhhhhhh
Q 026425          200 GKIDSLAD  207 (238)
Q Consensus       200 ~Ki~~ie~  207 (238)
                      .||..+|.
T Consensus        71 arl~~LE~   78 (79)
T PF04380_consen   71 ARLAALEA   78 (79)
T ss_pred             HHHHHHhc
Confidence            66666654

BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=81.93  E-value=9.2  Score=35.09  Aligned_cols=57  Identities=23%  Similarity=0.334  Sum_probs=34.5

Q ss_pred             HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhh
Q 026425          152 RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADK  208 (238)
Q Consensus       152 RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~k  208 (238)
                      +|+.+|.+++....-.+.+++++..++..++.+..++..++..+..|+..+..++.-
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~e   67 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESE   67 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356666666666666666666666666666666666666666666555555555433

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=81.87  E-value=46  Score=32.43  Aligned_cols=53  Identities=11%  Similarity=0.235  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 026425          139 TEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (238)
Q Consensus       139 s~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (238)
                      ++.+...=.+++.-.+.+....+++.+...++...+.++...+.++-...+.+
T Consensus       272 s~~v~~~s~el~~~~~~ls~~~~~qa~~i~~i~~s~eeis~~~~e~~~~~~~~  324 (553)
T PRK15048        272 SDAIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQLTATVKQNADNARQA  324 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444445555555555555555555555544444444444444433333

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=81.67  E-value=30  Score=28.97  Aligned_cols=90  Identities=21%  Similarity=0.242  Sum_probs=52.4

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          126 TAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       126 ~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +++..=-|+|++=...+..-=+.|+.|++.+...+|+..+-....++.+.+..    +-....++++..|..||..++..
T Consensus        17 e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~----~~~~~~E~l~rriq~LEeele~a   92 (143)
T PF12718_consen   17 EELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESE----KRKSNAEQLNRRIQLLEEELEEA   92 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH----HHHHhHHHHHhhHHHHHHHHHHH
Confidence            44555566677766666666677777777777777766444444444333222    12223446777777777777766


Q ss_pred             hhhhHHHHHHHHHH
Q 026425          206 ADKQDITNIGMYLL  219 (238)
Q Consensus       206 e~kQd~tn~GV~~L  219 (238)
                      +.+=.-|+.-+...
T Consensus        93 e~~L~e~~ekl~e~  106 (143)
T PF12718_consen   93 EKKLKETTEKLREA  106 (143)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66665555554433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=80.94  E-value=31  Score=37.55  Aligned_cols=31  Identities=19%  Similarity=0.221  Sum_probs=12.1

Q ss_pred             hhhhHHHhhhhHHHHHHHHHhhhhhhhhhhh
Q 026425          177 ACDDLFKVEHNLKDLQSMIYCLDGKIDSLAD  207 (238)
Q Consensus       177 v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~  207 (238)
                      .+..+..+..++...+.....|+..+..++.
T Consensus       868 ~~~~~~~l~~~l~~~~~~~~~l~~~l~~~~~  898 (1163)
T COG1196         868 LEAEKEELEDELKELEEEKEELEEELRELES  898 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333344444444444444444333

>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function

Probab=80.87  E-value=14  Score=30.26  Aligned_cols=43  Identities=21%  Similarity=0.360  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhh
Q 026425          137 SVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACD  179 (238)
Q Consensus       137 ~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~  179 (238)
                      ++...|..+|.+|.+-=+.|.+..++..++-..+.++-..+..
T Consensus        29 ~l~~eL~~~k~el~~yk~~V~~HF~~ta~Ll~~l~~~Y~~l~~   71 (128)
T PF06295_consen   29 KLEQELEQAKQELEQYKQEVNDHFAQTAELLDNLTQDYQKLYQ   71 (128)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555666666666666667777777776666666555543

>smart00787 Spc7 Spc7 kinetochore protein

Probab=80.28  E-value=43  Score=31.59  Aligned_cols=100  Identities=15%  Similarity=0.205  Sum_probs=50.0

Q ss_pred             HhHhhHHHHHHHHHHhhHHHHHHHHH---HHHHHHHHHHhhHHhHHHH----HHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 026425          119 VTRKSMATAVSNLNKHLESVTEALTV---AKKHLTQRIQNLNDKVEKQ----NEISKDIRKNVEEACDDLFKVEHNLKDL  191 (238)
Q Consensus       119 VTkr~ms~Av~sv~kqLe~Vs~sL~~---tKkhLsqRI~~vd~kld~~----~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (238)
                      -..-.|.+--+.+.++++.+.+.+..   -+..|...+..+..-.++.    .+.-..+++++.+...+++....++..+
T Consensus       151 ~~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~  230 (312)
T smart00787      151 ENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEEL  230 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555556666666655544333   2333444444443333332    1233344555555555555566666666


Q ss_pred             HHHHHhhhhhhhhhhhhhHHHHHHHHH
Q 026425          192 QSMIYCLDGKIDSLADKQDITNIGMYL  218 (238)
Q Consensus       192 ~~~V~~Le~Ki~~ie~kQd~tn~GV~~  218 (238)
                      +.-+..++.+|.....+..-.+.=|..
T Consensus       231 ~~~l~~l~~~I~~~~~~k~e~~~~I~~  257 (312)
T smart00787      231 EEELQELESKIEDLTNKKSELNTEIAE  257 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666555544444443333

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=80.13  E-value=38  Score=36.87  Aligned_cols=68  Identities=21%  Similarity=0.400  Sum_probs=42.5

Q ss_pred             HhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHH
Q 026425          154 QNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCNF  222 (238)
Q Consensus       154 ~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~f  222 (238)
                      +.+..+++.+.+--...++++.++..++..+...+..+..-++.++.++++++..+.. ..|+...-.+
T Consensus       442 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~-~~~~~~~~~~  509 (1163)
T COG1196         442 EELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRA-SQGVRAVLEA  509 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hhhHHHHHHH
Confidence            3333344444444455555666666666677777777777777777788888877776 5555544443

>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle

Probab=80.10  E-value=9.9  Score=29.32  Aligned_cols=57  Identities=16%  Similarity=0.247  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh---hhhHHHHHHHHHhhhhhhhhh
Q 026425          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV---EHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i---~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +..++++|..-|+.+.+.|++..+....       +..+=++|   ..++..=++.|..++.+|..|
T Consensus        37 ~~~~~~eL~~~l~~ie~~L~DL~~aV~i-------ve~np~kF~l~~~Ei~~Rr~fv~~~~~~i~~~   96 (97)
T PF09177_consen   37 LKWLKRELRNALQSIEWDLEDLEEAVRI-------VEKNPSKFNLSEEEISRRRQFVSAIRNQIKQM   96 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHCCHHHHT-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhCccccCCCHHHHHHHHHHHHHHHHHHHhc
Confidence            3445555555555555555555333332       22222222   234444445555555555544

Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.

>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6

Probab=80.07  E-value=15  Score=36.32  Aligned_cols=81  Identities=21%  Similarity=0.389  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH------------HhhhhHHHhhhhHHHHHHHHH--------hh
Q 026425          139 TEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE------------EACDDLFKVEHNLKDLQSMIY--------CL  198 (238)
Q Consensus       139 s~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~------------~v~~d~~~i~~dv~~v~~~V~--------~L  198 (238)
                      ..-+..-|++|+.+-++|-.++|+.+.+.+.++++|.            .+..|++....+++.+..-+.        .|
T Consensus       201 R~~~~~~k~~L~~~sd~Ll~kVdDLQD~VE~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~kp~WkKiW  280 (424)
T PF03915_consen  201 RAYMESGKKKLSEESDRLLTKVDDLQDLVEDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTEKPIWKKIW  280 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHH
Confidence            4457788999999999999999999999999988764            344555555555555555543        35


Q ss_pred             hhhhhhhhhhhHHHHHHHHHH
Q 026425          199 DGKIDSLADKQDITNIGMYLL  219 (238)
Q Consensus       199 e~Ki~~ie~kQd~tn~GV~~L  219 (238)
                      |.-|+.|..-|+|=+.=-.++
T Consensus       281 E~EL~~V~eEQqfL~~QedL~  301 (424)
T PF03915_consen  281 ESELQKVCEEQQFLKLQEDLL  301 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            667777777777776654443

In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	238
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 2e-04
 Identities = 32/212 (15%), Positives = 73/212 (34%), Gaps = 57/212 (26%)

Query: 34  LLRELQSLVERLSKSGEQDNF---TDAIKDQ-----LNRLKFECQRA---SSGQIFV--- 79
           LL + + +V++  +   + N+      IK +     +    +  QR    +  Q+F    
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130

Query: 80  --RNE--NSGGNATSLMIPAATL---GALGYGYMWWKGLSFADLMYVTRKS-MATAVSNL 131
             R +       A   + PA  +   G LG G                 K+ +A  V   
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSG-----------------KTWVALDVCL- 172

Query: 132 NKHLESVTEA----LTVAKKH----LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFK 183
           +  ++   +     L +   +    + + +Q L  +++       D   N++     +  
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI-- 230

Query: 184 VEHNLKDL-QSMIY--CLDGKI-DSLADKQDI 211
            +  L+ L +S  Y  CL   +  ++ + +  
Sbjct: 231 -QAELRRLLKSKPYENCLL--VLLNVQNAKAW 259

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	238
2ba2_A	85	D12_ORF131, hypothetical UPF0134 protein MPN010; D	94.77
1fxk_C	133	Protein (prefoldin); archaeal protein, chaperone;	94.1
2zdi_C	151	Prefoldin subunit alpha; chaperone, cytoplasm; 3.0	94.08
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	93.37
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	91.76
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	91.05
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	90.73
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	90.6
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	90.59
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	90.04
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	89.43
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	87.57
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.35
1m1j_A	491	Fibrinogen alpha subunit; coiled coils, disulfide	87.26
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	87.2
2yo3_A	268	General control protein GCN4, putative inner MEMB	85.93
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	85.77
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	85.5
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	85.49
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	85.28
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	84.64
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	84.39
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	84.2
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	84.13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	83.77
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	83.7
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	83.48
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	83.39
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	83.33
2qyw_A	102	Vesicle transport through interaction with T-SNAR	83.21
2xzr_A	114	Immunoglobulin-binding protein EIBD; cell adhesion	83.15
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	83.0
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	82.88
1gl2_D	65	Syntaxin 8, vesicle transport V-snare protein VTI1	82.25
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	82.03
3htk_A	60	Structural maintenance of chromosomes protein 5; S	81.77
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	80.83

>2ba2_A D12_ORF131, hypothetical UPF0134 protein MPN010; DUF16, hypothetical protein, coiled-coil, stutter, structural genomics, PSI; 1.80A {Mycoplasma pneumoniae} SCOP: h.1.30.1

Probab=94.77  E-value=0.057  Score=41.26  Aligned_cols=77  Identities=17%  Similarity=0.232  Sum_probs=50.4

Q ss_pred             HHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHh
Q 026425          118 YVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYC  197 (238)
Q Consensus       118 yVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~  197 (238)
                      |||+|-+..-....            .++..|.+|...+...+.-|-|-+..=-+++.+++-....-|.-++.|-....+
T Consensus         8 YVT~Kqf~e~l~~F------------k~~~~~~~~~~kie~~~~~QgEqI~~qGeqIkeLq~eqkaQg~tl~lil~tL~~   75 (85)
T 2ba2_A            8 YVTHKQLDEKLKNF------------VTKTEFKEFQTVVMESFAVQNQNIDAQGEQIKELQVEQKAQGKTLQLILEALQG   75 (85)
T ss_dssp             BCBHHHHHHHHTTB------------CBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceeHHHHHHHHHhh------------ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            78888777642221            355555666666666555555555544556666665556667777788888888


Q ss_pred             hhhhhhhhh
Q 026425          198 LDGKIDSLA  206 (238)
Q Consensus       198 Le~Ki~~ie  206 (238)
                      +..++|.||
T Consensus        76 ~nkRLDkle   84 (85)
T 2ba2_A           76 INKRLDNLE   84 (85)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHhhccC
Confidence            888998886

>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1

Probab=94.10  E-value=0.6  Score=36.45  Aligned_cols=43  Identities=12%  Similarity=0.135  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHh
Q 026425          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKV  184 (238)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i  184 (238)
                      +..|++.|..|++.++..+++..+....++++++.+...+.+.
T Consensus        86 ~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~i~~~~~~l~~~  128 (133)
T 1fxk_C           86 FEDAMESIKSQKNELESTLQKMGENLRAITDIMMKLSPQAEEL  128 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788889999999999999988888888888887777655543

>2zdi_C Prefoldin subunit alpha; chaperone, cytoplasm; 3.00A {Pyrococcus horikoshii}

Probab=94.08  E-value=0.88  Score=36.52  Aligned_cols=117  Identities=15%  Similarity=0.214  Sum_probs=71.2

Q ss_pred             CcchHHHHHHHHHHHhhhcCCCCcchHHHHHHHHHH---HHHH-hhhc----------CCCeEEEeCCCCCcceeehhhh
Q 026425           30 KLPELLRELQSLVERLSKSGEQDNFTDAIKDQLNRL---KFEC-QRAS----------SGQIFVRNENSGGNATSLMIPA   95 (238)
Q Consensus        30 ~Lsd~~g~lq~~~k~~~k~g~~~~~~d~L~aQV~~L---~~El-~las----------~r~iTvvn~~sGg~~~~~ivpa   95 (238)
                      .+++=+..|...+..++.      ....|..+.++|   ...+ +.-.          ...-+-|.-|++--..+-|.|.
T Consensus         6 ~~~~~l~ql~~~~qql~~------~~~~l~~~~~~L~~a~~~~~e~~~~l~~l~~l~~~~~~ilvplg~~~yv~g~i~~~   79 (151)
T 2zdi_C            6 QNNKELEKLAYEYQVLQA------QAQILAQNLELLNLAKAEVQTVRETLENLKKIEEEKPEILVPIGAGSFLKGVIVDK   79 (151)
T ss_dssp             SSTTHHHHHHHHHHHHTT------TTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCSSCEEEEECSSSCEEEEECSCT
T ss_pred             hhHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCeEEEEEECCC
Confidence            455556666666666653      366677777777   5544 2211          2234445655551111111111


Q ss_pred             h-HhhhhheeeeeeeccccchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 026425           96 A-TLGALGYGYMWWKGLSFADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNV  174 (238)
Q Consensus        96 A-~vGavGYgYmwWKGws~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV  174 (238)
                      = ++.-+|.||+-.+-                               +..|+..|..||+.+...+++..+..+.+++++
T Consensus        80 ~~V~v~lG~g~~vE~~-------------------------------~~eA~~~l~~ri~~l~~~l~~l~~~l~~l~~~i  128 (151)
T 2zdi_C           80 NNAIVSVGSGYAVERS-------------------------------IDEAISFLEKRLKEYDEAIKKTQGALAELEKRI  128 (151)
T ss_dssp             TEEEEEEETTEEEEEE-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCeEEEec-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            0 12358899988874                               578888899999999888888877777777777


Q ss_pred             HHhhhhHHH
Q 026425          175 EEACDDLFK  183 (238)
Q Consensus       175 ~~v~~d~~~  183 (238)
                      +.+...+.+
T Consensus       129 ~~~~~~l~~  137 (151)
T 2zdi_C          129 GEVARKAQE  137 (151)
T ss_dssp             HTHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666654444

>2no2_A HIP-I, huntingtin-interacting protein 1; clathrin light chain binding, HIP1 coiled-coil domain, endocytosis, clathrin SELF-assembly, cell adhesion; 2.80A {Homo sapiens}

Probab=93.37  E-value=1.3  Score=34.54  Aligned_cols=79  Identities=14%  Similarity=0.243  Sum_probs=62.7

Q ss_pred             HHHHHhh---HHHHHHHHHHHHHHHHHHHhhH----HhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 026425          129 SNLNKHL---ESVTEALTVAKKHLTQRIQNLN----DKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (238)
Q Consensus       129 ~sv~kqL---e~Vs~sL~~tKkhLsqRI~~vd----~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (238)
                      +.++|||   .+..+.+..+|+.|..+|+.+.    .|++++.+....++.++..=..++..+..+++.....=..|..+
T Consensus        11 aE~~KqL~~~~q~~~e~e~~k~eL~~~~~~~~~~~~~k~~eq~~~le~lk~eL~~~~~el~~lq~~l~~~~~~~~~l~~~   90 (107)
T 2no2_A           11 AEVTKQVSMARQAQVDLEREKKELEDSLERISDQGQRKTQEQLEVLESLKQELATSQRELQVLQGSLETSAQSEANWAAE   90 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666   4667788999999999999865    56788888888888899888888888888888888777777777


Q ss_pred             hhhhhh
Q 026425          202 IDSLAD  207 (238)
Q Consensus       202 i~~ie~  207 (238)
                      ++.++.
T Consensus        91 ~~~l~~   96 (107)
T 2no2_A           91 FAELEK   96 (107)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=91.76  E-value=2.3  Score=40.83  Aligned_cols=96  Identities=13%  Similarity=0.252  Sum_probs=59.3

Q ss_pred             cchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHH-----Hh
Q 026425          113 FADLMYVTRKSMATAVSNLNKHLESVTEALTVAKK---HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLF-----KV  184 (238)
Q Consensus       113 ~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKk---hLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~-----~i  184 (238)
                      +.|+|=-..++....+..+-..|++++..-++++.   +|+..+...+.++.++.+..+.-.+++.+.+.-+.     ++
T Consensus        87 l~D~L~k~q~~V~~~LqeLe~~l~~lsn~Ts~~~~~i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i~~~~~~~~  166 (464)
T 1m1j_B           87 LQTTLLKQEKTVKPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYIKDNLDNNI  166 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHHHHHHhccc
Confidence            48999999999999999999999999876666553   35555555555555544444444444433332222     23


Q ss_pred             hhhHHHHHHHHHhhhhhhhhhhhh
Q 026425          185 EHNLKDLQSMIYCLDGKIDSLADK  208 (238)
Q Consensus       185 ~~dv~~v~~~V~~Le~Ki~~ie~k  208 (238)
                      ...+..++..++.|..||..+|.+
T Consensus       167 ~~~i~~L~~~~~~l~~ki~~l~~~  190 (464)
T 1m1j_B          167 PSSLRVLRAVIDSLHKKIQKLENA  190 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555556666666655544

>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A 3ur1_C

Probab=91.05  E-value=2.7  Score=36.11  Aligned_cols=35  Identities=17%  Similarity=0.339  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHH
Q 026425          124 MATAVSNLNKHLESVTEALTVAKKHLTQRIQNLND  158 (238)
Q Consensus       124 ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~  158 (238)
                      ++.|+..++..+..+.+.++..-.++..-++.+..
T Consensus         5 va~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~   39 (213)
T 3g67_A            5 VKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEK   39 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444333333

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=90.60  E-value=3.6  Score=40.43  Aligned_cols=99  Identities=15%  Similarity=0.173  Sum_probs=71.2

Q ss_pred             cchhHHHhHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHh-------HHHHHHHHHHHHHHHHHhhhhHHHhh
Q 026425          113 FADLMYVTRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDK-------VEKQNEISKDIRKNVEEACDDLFKVE  185 (238)
Q Consensus       113 ~sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~k-------ld~~~eis~~i~~eV~~v~~d~~~i~  185 (238)
                      +-++|-=+-|++.+-++.|-.+|++++..=..+-....+..+.|..+       -+-..|++.+.+..+..+++.|.+--
T Consensus        51 LQglLdkqErDltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdNtynE~S~ELRRrIqyLKekVdnQl  130 (562)
T 3ghg_A           51 MKGLIDEVNQDFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSANNRDNTYNRVSEDLRSRIEVLKRKVIEKV  130 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHhhcCcHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45678888999999999999999998766555555444444444333       34445566677777777777777655


Q ss_pred             hhHHHHHHHHHhhhhhhhhhhhhhHH
Q 026425          186 HNLKDLQSMIYCLDGKIDSLADKQDI  211 (238)
Q Consensus       186 ~dv~~v~~~V~~Le~Ki~~ie~kQd~  211 (238)
                      .-++.||..|+.+-.||.+||.--|+
T Consensus       131 snIrvLQsnLedq~~kIQRLEvDIdi  156 (562)
T 3ghg_A          131 QHIQLLQKNVRAQLVDMKRLEVDIDI  156 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888888899988855443

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=90.59  E-value=2.5  Score=34.85  Aligned_cols=76  Identities=18%  Similarity=0.312  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHH------------HhhhhHHHhhhhHHHHHHHHH--------hhh
Q 026425          140 EALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVE------------EACDDLFKVEHNLKDLQSMIY--------CLD  199 (238)
Q Consensus       140 ~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~------------~v~~d~~~i~~dv~~v~~~V~--------~Le  199 (238)
                      .-+..-|++|+.+.|+|-.++|+.+.+.+..|++|.            .+..|+.....|++.+.+.+.        .+|
T Consensus        10 ~y~~~~k~kL~~~sd~LvtkVDDLQD~VE~LRkDV~~RgvrP~~~ql~~v~kdi~~a~~eL~~m~~~i~~ekP~WKKiWE   89 (141)
T 3okq_A           10 MYMEKSQTELGDLSDTLLSKVDDLQDVIEIMRKDVAERRSQPAKKKLETVSKDLENAQADVLKLQEFIDTEKPHWKKTWE   89 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHH
Confidence            346778999999999999999999999999988764            466677777777777766664        367


Q ss_pred             hhhhhhhhhhHHHHHH
Q 026425          200 GKIDSLADKQDITNIG  215 (238)
Q Consensus       200 ~Ki~~ie~kQd~tn~G  215 (238)
                      ..|..|..-|+|-|.=
T Consensus        90 ~EL~~VceEQqfl~~Q  105 (141)
T 3okq_A           90 AELDKVCEEQQFLTLQ  105 (141)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            7788888888876654

>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A 3ur1_C

Probab=90.04  E-value=6.5  Score=33.72  Aligned_cols=74  Identities=11%  Similarity=0.178  Sum_probs=39.8

Q ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhh
Q 026425          130 NLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKID  203 (238)
Q Consensus       130 sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~  203 (238)
                      .+...+++++..+...-..+....+.+....++..+.+..+.+.+.+....+.++...+..+...+..+..++.
T Consensus         4 qva~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (213)
T 3g67_A            4 EVKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISENIMEELKKSGTNVDQIVERVKEASSQIGETLENIR   77 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555666666666666666555555555555555555555555555555554444444444444443333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=89.43  E-value=2.4  Score=36.61  Aligned_cols=63  Identities=14%  Similarity=0.153  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 026425          142 LTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (238)
Q Consensus       142 L~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (238)
                      |...+++|-..|+.+.+.+.....-...++.++.++...+.++..|++.++..+...+.++..
T Consensus        23 l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~   85 (256)
T 3na7_A           23 LEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSE   85 (256)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            333344444444444444444444444444444444444444444444444444444444433

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=87.57  E-value=6  Score=28.15  Aligned_cols=69  Identities=14%  Similarity=0.299  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHHhhHHHHH-HHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 026425          123 SMATAVSNLNKHLESVTE-ALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~-sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (238)
                      .|+.+.+.|=.|-|.+-. .-+.+..-...+++.+........+-....+.|+++++..+..+..+++++
T Consensus         6 DL~~il~eiRaQYE~ia~knr~EaE~~y~~k~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~sl   75 (77)
T 3trt_A            6 DCTAAMRDVRQQYESVAAKNLQEAEEWYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVDAL   75 (77)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            456666666666665443 334555566777777766666666666666777776666666666665554

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.35  E-value=4  Score=37.50  Aligned_cols=65  Identities=14%  Similarity=-0.004  Sum_probs=49.3

Q ss_pred             HHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHH
Q 026425          157 NDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLLCN  221 (238)
Q Consensus       157 d~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~Lc~  221 (238)
                      ....+++.++.++.+.+-..++.|.+.++.+++.+++.-..++..+.+++..=.-++.-...+|.
T Consensus       413 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (487)
T 3oja_A          413 RAIVKRYEEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVV  477 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHH
Confidence            34555666677788888888888888888888888888888888888777776667766666664

>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: h.1.8.1 PDB: 1ei3_A

Probab=87.26  E-value=9.1  Score=37.10  Aligned_cols=102  Identities=14%  Similarity=0.195  Sum_probs=85.4

Q ss_pred             eccccchhHHHhHhhHHHHHHHHHHhhHHH-------HHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhH
Q 026425          109 KGLSFADLMYVTRKSMATAVSNLNKHLESV-------TEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDL  181 (238)
Q Consensus       109 KGws~sDlMyVTkr~ms~Av~sv~kqLe~V-------s~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~  181 (238)
                      -|--+-++|-=+.|+..+.++.+.+.|+.+       +.-+..++.-|.+|.....+.=+-..|.+..++.....+++.+
T Consensus        48 SGCrLqglL~kqerdv~~rI~kLkn~L~~~s~s~~~s~~y~~~~~~~lk~~~~q~~dndn~~~e~S~eLe~ri~yIK~kV  127 (491)
T 1m1j_A           48 SGCRMQGIIDDTDQNYSQRIDNIRQQLADSQNKYKTSNRVIVETINILKPGLEGAQQLDENYGHVSTELRRRIVTLKQRV  127 (491)
T ss_dssp             CSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CccchhhHHHHhhhhHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHH
Confidence            355677888889999999999999988877       4557778888888888888888888999999999999999988


Q ss_pred             HHhhhhHHHHHHHHHhhhhhhhhhhhhhH
Q 026425          182 FKVEHNLKDLQSMIYCLDGKIDSLADKQD  210 (238)
Q Consensus       182 ~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd  210 (238)
                      ..--..+..|+..|+.+-.||.+||.--+
T Consensus       128 d~qi~~IrvLq~~l~~q~skIQRLE~dI~  156 (491)
T 1m1j_A          128 ATQVNRIKALQNSIQEQVVEMKRLEVDID  156 (491)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            76558899999999999999999985443

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=87.20  E-value=4.2  Score=37.15  Aligned_cols=78  Identities=22%  Similarity=0.256  Sum_probs=55.8

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 026425          123 SMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (238)
                      .|.+++..+-..=..+-++|..+.+.+.+-|++.-. ..|+......+++++++++..+.+++-.-..-++.|.+|-..
T Consensus       356 ~~~~~~~~vl~G~~t~eeal~~~~~~i~~~l~~~~~-~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  433 (471)
T 3mq9_A          356 AVRTAVINAASGRQTVDEALKDAQTRITAARDGLRA-VMEARNVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMAS  433 (471)
T ss_dssp             HHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhHH-HHHhhhHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHH
Confidence            344455444444345677788888888877777644 447778888899999999999999888887777777666443

>2yo3_A General control protein GCN4, putative inner MEMB protein, general control protein...; HANS motif, YADA-like head, ylhead; 2.00A {Saccharomyces cerevisiae}

Probab=85.93  E-value=2.1  Score=38.64  Aligned_cols=58  Identities=16%  Similarity=0.366  Sum_probs=36.3

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHH
Q 026425          134 HLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDL  191 (238)
Q Consensus       134 qLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v  191 (238)
                      ...|+++++..++....+|+..|+.++++...=..++.+.|.++-..+-.|..+++.+
T Consensus       199 Nv~QL~~s~~~an~yTd~k~~~l~n~I~~V~n~~~q~~~~~~~~~~~~~~~~~~~~~~  256 (268)
T 2yo3_A          199 NYAQLKRSVEEANTYTDQKMGEMNSKIKGVENKMKQIEDKIEEILSKIYHIENEIARI  256 (268)
T ss_dssp             BHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567778899999988888888877766554444444444444444444444444433

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=85.77  E-value=1.9  Score=34.01  Aligned_cols=72  Identities=17%  Similarity=0.267  Sum_probs=37.6

Q ss_pred             HHHhhHHHHHHHHHHHHH---HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          131 LNKHLESVTEALTVAKKH---LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       131 v~kqLe~Vs~sL~~tKkh---LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +.++...-++.+..+|.+   +..+|+.|...++.+...-......+.++.   .+...+++.++..+..||.-+..+
T Consensus        20 l~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e---~~~~~~l~~~q~~i~~lE~eL~~~   94 (129)
T 3tnu_B           20 LQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAE---QRGELALKDARNKLAELEEALQKA   94 (129)
T ss_dssp             --------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhHHHH
Confidence            333333444455555543   345677777777777666666666666665   344556677777777777766654

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=85.50  E-value=14  Score=31.24  Aligned_cols=80  Identities=18%  Similarity=0.283  Sum_probs=45.9

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHH---HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHH
Q 026425          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLT---QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIY  196 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLs---qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~  196 (238)
                      .-+.+.++...+-+.+-++...|..=|+--+   .+|..+..++.       ....|+..++...++.-.|...+++.+.
T Consensus        56 ~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~-------~L~~El~~~k~~~~k~~~e~r~L~Ekl~  128 (168)
T 3o0z_A           56 RNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARIT-------SLQEEVKHLKHNLEKVEGERKEAQDMLN  128 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345555555566666666665555443222   22222222222       2345566666666667778888888888


Q ss_pred             hhhhhhhhhh
Q 026425          197 CLDGKIDSLA  206 (238)
Q Consensus       197 ~Le~Ki~~ie  206 (238)
                      .||..-.+++
T Consensus       129 ~lEKe~a~~e  138 (168)
T 3o0z_A          129 HSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhhh
Confidence            8888777666

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=85.49  E-value=9.1  Score=30.86  Aligned_cols=64  Identities=16%  Similarity=0.151  Sum_probs=49.7

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHH
Q 026425          148 HLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDI  211 (238)
Q Consensus       148 hLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~  211 (238)
                      .+.++++.+...+++...=....+.++...+..++....++..++.-+..|+.++.++|.+.+.
T Consensus        72 k~~~~~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~le~~~~~  135 (138)
T 3hnw_A           72 KAKKMADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKLETELND  135 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455677777777777777777788888888888888888888888888888888888877654

>2akf_A Coronin-1A; coiled coil, protein binding; 1.20A {Synthetic}

Probab=85.28  E-value=0.69  Score=29.11  Aligned_cols=28  Identities=18%  Similarity=0.488  Sum_probs=24.5

Q ss_pred             HHhhhhHHHHHHHHHhhhhhhhhhhhhh
Q 026425          182 FKVEHNLKDLQSMIYCLDGKIDSLADKQ  209 (238)
Q Consensus       182 ~~i~~dv~~v~~~V~~Le~Ki~~ie~kQ  209 (238)
                      +++..|+.+++.+|..|..+++++|+.-
T Consensus         2 srlee~~r~l~~ivq~lq~r~drle~tv   29 (32)
T 2akf_A            2 SRLEEDVRNLNAIVQKLQERLDRLEETV   29 (32)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677899999999999999999999764

>4dnd_A Syntaxin-10, SYN10; structural genomics, protein structure initiative, nysgrc, P biology, NEW YORK structural genomics research consortium; HET: MSE; 1.40A {Homo sapiens} PDB: 1lvf_A

Probab=84.64  E-value=2.9  Score=33.54  Aligned_cols=27  Identities=15%  Similarity=0.368  Sum_probs=14.9

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHH
Q 026425          120 TRKSMATAVSNLNKHLESVTEALTVAK  146 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL~~tK  146 (238)
                      +++.|.++|.++..+|+.+.+++..+.
T Consensus        68 ~~~EL~~~l~sie~dLeDLe~sI~ivE   94 (130)
T 4dnd_A           68 TTNELRNGLRSIEWDLEDLEETIGIVE   94 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555544

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=84.20  E-value=16  Score=30.36  Aligned_cols=66  Identities=18%  Similarity=0.149  Sum_probs=39.9

Q ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhh
Q 026425          127 AVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLA  206 (238)
Q Consensus       127 Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie  206 (238)
                      +|+.. +.+.+.-..|+.-..++..||..++..+.+-....+.+++|..              .++--..-+|.|+..++
T Consensus        59 ~vs~~-~~~~~~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~--------------aLqlq~n~lE~kl~kLq  123 (152)
T 3a7p_A           59 IVSHD-DALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALI--------------SGTIENNVLQQKLSDLK  123 (152)
T ss_dssp             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHH
T ss_pred             cccch-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHH
Confidence            44444 3444566667777777777777777776666555555555554              44445555666666665


Q ss_pred             h
Q 026425          207 D  207 (238)
Q Consensus       207 ~  207 (238)
                      .
T Consensus       124 ~  124 (152)
T 3a7p_A          124 K  124 (152)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=84.13  E-value=12  Score=34.02  Aligned_cols=42  Identities=7%  Similarity=0.189  Sum_probs=27.2

Q ss_pred             hhHHHHHHHHHHhhHHHHHH------HHHHHHHHHHHHHhhHHhHHHH
Q 026425          122 KSMATAVSNLNKHLESVTEA------LTVAKKHLTQRIQNLNDKVEKQ  163 (238)
Q Consensus       122 r~ms~Av~sv~kqLe~Vs~s------L~~tKkhLsqRI~~vd~kld~~  163 (238)
                      .+...|++.+.+++++.-+.      .+.+.++|++.|+++.+++-+.
T Consensus       369 ~t~eeal~~~~~~i~~~l~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~  416 (471)
T 3mq9_A          369 QTVDEALKDAQTRITAARDGLRAVMEARNVTHLLQQELTEAQKGFQDV  416 (471)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhhHHHHHhhhHHHHHHHHHHHHhhhHHHH
Confidence            35566666666666555443      3345667889999888887654

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=83.77  E-value=11  Score=35.02  Aligned_cols=36  Identities=8%  Similarity=0.157  Sum_probs=27.7

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH
Q 026425          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN  157 (238)
Q Consensus       122 r~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd  157 (238)
                      ..+.+.+..+-..+++....++..++++..|.+...
T Consensus       459 ~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~~  494 (597)
T 3oja_B          459 NELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRYR  494 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcC
Confidence            346677888888888888888888888887777665

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=83.70  E-value=15  Score=29.15  Aligned_cols=35  Identities=17%  Similarity=0.244  Sum_probs=14.4

Q ss_pred             HHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          171 RKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       171 ~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +.++..+...+..+..++..+...+..++..+..+
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (284)
T 1c1g_A           68 QEKLELAEKKATDAEADVASLNRRIQLFEEELDRA  102 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444444444444333

>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, phosphoprotein, polymorphism; 2.90A {Homo sapiens}

Probab=83.48  E-value=2.7  Score=31.49  Aligned_cols=27  Identities=15%  Similarity=0.335  Sum_probs=14.8

Q ss_pred             HHHHHHHhhHHhHHHHHHHHHHHHHHH
Q 026425          148 HLTQRIQNLNDKVEKQNEISKDIRKNV  174 (238)
Q Consensus       148 hLsqRI~~vd~kld~~~eis~~i~~eV  174 (238)
                      .|..||..+...|++...=....+.|+
T Consensus        24 ~Le~~v~~le~~Le~s~~~q~~~~~El   50 (79)
T 3cvf_A           24 ELEHQLRAMERSLEEARAERERARAEV   50 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355556666655555555555555444

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=83.39  E-value=11  Score=28.38  Aligned_cols=67  Identities=15%  Similarity=0.162  Sum_probs=35.7

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHH
Q 026425          153 IQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGMYLL  219 (238)
Q Consensus       153 I~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV~~L  219 (238)
                      ++.|..|+++..+.+...+-++.+++++-.....+.+.++.-...|+....++..-|..-...|..|
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555556666666665555555555555555555555555544444444444333

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=83.33  E-value=2  Score=34.00  Aligned_cols=74  Identities=22%  Similarity=0.342  Sum_probs=38.9

Q ss_pred             HHHHHhhHHHHHHHHHHHHH---HHHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhhh
Q 026425          129 SNLNKHLESVTEALTVAKKH---LTQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDSL  205 (238)
Q Consensus       129 ~sv~kqLe~Vs~sL~~tKkh---LsqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~i  205 (238)
                      +.+.++...-++.+..+|.+   +..+|+.|...++.+...-....+.+.++.   .+...+++.++..+..||.-+..+
T Consensus        20 eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e---~~~~~~l~~~q~~i~~lE~eL~~~   96 (131)
T 3tnu_A           20 EELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETK---GRYCMQLAQIQEMIGSVEEQLAQL   96 (131)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444445666666654   456788888888877777777777776666   345567777777788888777655

>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V

Probab=83.21  E-value=5.2  Score=30.50  Aligned_cols=62  Identities=13%  Similarity=0.180  Sum_probs=41.7

Q ss_pred             chhHHHhHhhHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHhh
Q 026425          114 ADLMYVTRKSMATAVSNLNKHLESVTEALT-VAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEAC  178 (238)
Q Consensus       114 sDlMyVTkr~ms~Av~sv~kqLe~Vs~sL~-~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v~  178 (238)
                      |+++----+.+...++++++.++++..... ..|+.   .|..++..|||..|+..++.-|+..+-
T Consensus        14 SelFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~---~i~~ie~~ldEA~eLl~qMelE~r~~p   76 (102)
T 2qyw_A           14 SEHFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKK---LVRDFDEKQQEANETLAEMEEELRYAP   76 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            344444556677777777777777643322 34433   366777889999999999888876653

>2xzr_A Immunoglobulin-binding protein EIBD; cell adhesion, trimeric autotransporter adhesin, TAA; 2.80A {Enterobacteria phage p-eibd}

Probab=83.15  E-value=15  Score=28.88  Aligned_cols=72  Identities=15%  Similarity=0.402  Sum_probs=44.3

Q ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHHHHH---HHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHH
Q 026425          123 SMATAVSNLNKHLESVTEALTVAKKHLTQ---RIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSM  194 (238)
Q Consensus       123 ~ms~Av~sv~kqLe~Vs~sL~~tKkhLsq---RI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~  194 (238)
                      ....++++=++.++.-|-+|++--+.|.|   |++....+++|..+=-+++.+++.++-.+.-.+..++..+...
T Consensus        31 ~~d~ri~~NtqaI~~NS~aiaanTr~lQqh~aRlnsqQrQI~ENhkEMKq~aaqsaaLlsk~yh~ene~ar~kkl  105 (114)
T 2xzr_A           31 AIDGRVTRNTQSIEKNSKAIAANTRTLQQHSARLDSQQRQINENHKEMKQIEDKIEEILSKIYHIENEIARIKKL  105 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHhhHHHHHhchHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            45677788888888888888755555544   5544444555544444555566666666666666666555443

>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C

Probab=83.00  E-value=5.8  Score=29.92  Aligned_cols=53  Identities=6%  Similarity=0.191  Sum_probs=39.3

Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHHHHHHh
Q 026425          122 KSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLNDKVEKQNEISKDIRKNVEEA  177 (238)
Q Consensus       122 r~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd~kld~~~eis~~i~~eV~~v  177 (238)
                      +.+...++++...|+++...=...|+.   -|..++..+|+..|+..++.-||..+
T Consensus         8 ~df~~~~~~i~~~l~~~~~~~ge~Rk~---~i~~ie~~ldEA~ell~qMelE~~~~   60 (97)
T 3onj_A            8 SDFKTTLEQAKASLAEAPSQPLSQRNT---TLKHVEQQQDELFDLLDQMDVEVNNS   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHGGGSCHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccChHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            455677788888887776333334443   36777889999999999999999888

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=82.88  E-value=9  Score=33.00  Aligned_cols=64  Identities=11%  Similarity=0.099  Sum_probs=30.4

Q ss_pred             HHhhHHhHHHHHHHHHHHHHHHHHhh--hhHHHhhhhHHHHHHHHHhhhhhhhhhhhhhHHHHHHH
Q 026425          153 IQNLNDKVEKQNEISKDIRKNVEEAC--DDLFKVEHNLKDLQSMIYCLDGKIDSLADKQDITNIGM  216 (238)
Q Consensus       153 I~~vd~kld~~~eis~~i~~eV~~v~--~d~~~i~~dv~~v~~~V~~Le~Ki~~ie~kQd~tn~GV  216 (238)
                      +.++...+++..+-.+..++....++  .++..+..+++....-...||.+|-++...-+....-+
T Consensus        62 ~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l  127 (256)
T 3na7_A           62 VSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQ  127 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444432  23444555555555555555555555555554444333

>1gl2_D Syntaxin 8, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1

Probab=82.25  E-value=6.1  Score=27.42  Aligned_cols=51  Identities=8%  Similarity=0.231  Sum_probs=27.7

Q ss_pred             HHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 026425          151 QRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (238)
Q Consensus       151 qRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (238)
                      +.++.|..++..++.++..|.+|+.+=-.=+.++..+++.....+..--.|
T Consensus         9 ~~Ld~L~~~v~~lk~~a~~Ig~El~~Qn~lLd~l~~~~d~~~~~l~~~~~r   59 (65)
T 1gl2_D            9 AGLDALSSIISRQKQMGQEIGNELDEQNEIIDDLANLVENTDEKLRTEARR   59 (65)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555566666666666666666555544555555555554444433333

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=82.03  E-value=29  Score=32.25  Aligned_cols=8  Identities=13%  Similarity=-0.263  Sum_probs=3.1

Q ss_pred             HHHHHHHh
Q 026425          216 MYLLCNFV  223 (238)
Q Consensus       216 V~~Lc~f~  223 (238)
                      +.-|-+.+
T Consensus       574 ~~~l~~~~  581 (597)
T 3oja_B          574 VKQLEAKK  581 (597)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHh
Confidence            33344333

>3htk_A Structural maintenance of chromosomes protein 5; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=81.77  E-value=6.7  Score=26.58  Aligned_cols=46  Identities=13%  Similarity=0.166  Sum_probs=18.2

Q ss_pred             hHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhh
Q 026425          156 LNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGK  201 (238)
Q Consensus       156 vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~K  201 (238)
                      +..+++++.+.-..++.+..+.+..+.+.-.++..++.-+..+..+
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~l~~~~~~I~~~k~q   55 (60)
T 3htk_A           10 LENQVEELTEKCSLKTDEFLKAKEKINEIFEKLNTIRDEVIKKKNQ   55 (60)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334433333334444444433444444444444444333333

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=80.83  E-value=14  Score=26.85  Aligned_cols=55  Identities=15%  Similarity=0.163  Sum_probs=29.3

Q ss_pred             HHHHHhhHHhHHHHHHHHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHhhhhhhhh
Q 026425          150 TQRIQNLNDKVEKQNEISKDIRKNVEEACDDLFKVEHNLKDLQSMIYCLDGKIDS  204 (238)
Q Consensus       150 sqRI~~vd~kld~~~eis~~i~~eV~~v~~d~~~i~~dv~~v~~~V~~Le~Ki~~  204 (238)
                      ..|.+.+..++.+...-.....++|..++..+..+..|++....-+.....|+..
T Consensus        19 ~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLee   73 (81)
T 1ic2_A           19 LDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLEL   73 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555555555555556555555555555555555555444443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	238
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	86.97

>d1lvfa_ a.47.2.1 (A:) Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 6, SNAP-25 homolog
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.97  E-value=0.55  Score=34.27  Aligned_cols=60  Identities=15%  Similarity=0.340  Sum_probs=39.0

Q ss_pred             hHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhH-HhHHHHHHHHHHHHHHHHHhhhhH
Q 026425          120 TRKSMATAVSNLNKHLESVTEALTVAKKHLTQRIQNLN-DKVEKQNEISKDIRKNVEEACDDL  181 (238)
Q Consensus       120 Tkr~ms~Av~sv~kqLe~Vs~sL~~tKkhLsqRI~~vd-~kld~~~eis~~i~~eV~~v~~d~  181 (238)
                      +++-|.++|.++-.+|+.+.+++..+.++-. |- +++ ..++.=....+.++++|..++..+
T Consensus        43 ~~~eL~~~l~siewdL~dLe~av~~ve~np~-kf-~l~~~ei~~Rr~fi~~~~~~I~~~~~~l  103 (106)
T d1lvfa_          43 TTNELRNNLRSIEWDLEDLDETISIVEANPR-KF-NLDATELSIRKAFITSTRQIVRDMKDQM  103 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSSGG-GG-TCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhCHH-hc-CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6888999999999999999999988865422 11 122 224444555556666665555444